1547 lines
45 KiB
Plaintext
1547 lines
45 KiB
Plaintext
2016-03-30 warnes
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* [r2122] R/plot.lowess.R: plotLowess() wasn't finding objects in
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the caller's environment.
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2016-03-28 warnes
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* [r2121] DESCRIPTION, inst/NEWS: Update gplots version to 3.0.0.
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* [r2120] man/heatmap.2.Rd: The 'layout' element of the list
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returned from heatmap.2 is a named list, not a named vector.
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* [r2119] man/gplots-deprecated.Rd: Used wrong comment character.
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* [r2118] man/gplots-deprecated.Rd: Comment out arguments section
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to avoid R CMD check warning.
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2016-03-25 warnes
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* [r2112] man/heatmap.2.Rd: Update URL for RColorBrewer
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* [r2111] DESCRIPTION: Fix typos and quote uncommon words to make R
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CMD check happy
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* [r2110] DESCRIPTION, inst/ChangeLog, inst/NEWS: Update files for
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gplots 2.18.0
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* [r2109] NAMESPACE: Add imports recommended by R CMD check on
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WinBuilder
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* [r2108] man/heatmap.2.Rd: Add trailing slash to make R CMD
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check's URL testing happy.
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* [r2107] tests/heatmap2Test.Rout.save: Update test output to match
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corrected messages
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* [r2106] R/plot.venn.R: Warning message didn't have spaces between
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words. Minor code reformatting.
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* [r2105] R/lowess.R: Remove obsolete function to add '...' to
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argument list for stats::lowess().
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* [r2104] man/lowess.Rd, man/venn.Rd: Fix errors identified by R
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CMD check
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* [r2103] R/heatmap.2.R: Fix error when Rowv=FALSE or Colv=FALSE
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* [r2102] man/gplots-defunct.Rd, man/gplots-deprecated.Rd: Fix
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documenation issues identified by 'R CMD check'
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* [r2101] man/venn.Rd: Correct discrepencies in man page
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* [r2100] man/venn.Rd: Correct discrepencies in man page
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* [r2099] man/lowess.Rd: Correct differences between calls on man
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page and in code
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* [r2098] R/lmplot2.R: Fix name of replacement functon in defuct
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message generated by plot.lm2
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* [r2097] man/lowess.Rd: Improve lowess() man page
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* [r2096] NAMESPACE: Add plotLowess() and plot.lowess() to the
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NAMESPACE
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* [r2095] R/plot.lowess.R: Ensure lowess plot methods (invisibly)
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return the lowess object.
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* [r2094] man/lowess.Rd: Update man page for lowess to reflect new
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lowess method for plot().
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* [r2093] R/plot.lowess.R: Ensure extra arguments are properly
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passed to the plot call.
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* [r2092] R/heatmap.2.R: Corrected a bug causing "Error in
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plot.new() : figure margins too large" to occur when 'key=FALSE'.
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(Reported and patch provided by Sveinung Gundersen.)
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2016-03-24 warnes
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* [r2091] R/lowess.R, R/plot.lowess.R: Rename plot.lowess to
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plotLowess to avoid confusions with plot() method for class
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'lowess', create a plot() method for class 'lowess' and modify
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the lowess.default() and lowess.formula() to add the 'lowess'
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class to the returned object, along with a 'call' list element.
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* [r2090] R/venn.R, R/vennMembers.R, man/venn.Rd: The
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'intersections' attribute returned from venn() has been improved
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to use set names instead of indicators, and is ordered from
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simplest to most complex set interactions.
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* [r2089] R/smartlegend.R, man/gplots-defunct.Rd,
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man/gplots-deprecated.Rd: The smartlegend() function has been
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made defunct and is no longer available.
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* [r2088] R/lmplot2.R: Indentation changes
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* [r2087] man/heatmap.2.Rd: Update heatmap.2() man page to reflect
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addition of to the returned object.
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* [r2086] R/lowess.R: Remove observations with missing values when
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lowess is called using the formula interface.
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* [r2085] R/heatmap.2.R: Add layout infromation to object returned
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from heatmap.2() (patch provided by Jenny Drnevich).
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* [r2084] DESCRIPTION: Correct spelling
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2016-03-08 warnes
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* [r2083] R/plot.lowess.R: Add function to plot points and lowess
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using formula interface.
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* [r2082] R/lowess.R: Remove old code for S-Plus and modernize
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formula handling code.
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* [r2081] R/heatmap.2.R: Set srtCol default if missing and colCol
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is set
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2016-02-26 warnes
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* [r2080] R/venn.R: venn() now support matrix arguments.
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* [r2079] R/angleAxis.R, man/angleAxis.Rd: New angleAxis() function
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to create axis labels with rotated text.
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* [r2078] R/heatmap.2.R: - heatmap.2() can now be used to plot
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subsets of a previous heatmap.
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- Remove stray 'browser()' debuggint statement from heatmap.2()
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code.
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- Decrease the granularity of the carpet in heatmap.2()'s color
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key to
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avoid visual artifacts.
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2015-11-23 warnes
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* [r2070] R/heatmap.2.R: Remove debugging print() statement.
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2015-07-22 warnes
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* [r2062] DESCRIPTION, R/heatmap.2.R, R/layout_set.R: Renamed
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'test' directory to 'tests', commented out tests for lme4 which
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has a changed API
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2015-06-02 warnes
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* [r2052] R/boxplot2.R: Defunct message for boxplot.n was
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recommending the wrong function
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2015-05-02 warnes
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* [r2018] Rename 'trunk' to 'pkg' for compatibility with R-forge
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2015-05-01 warnes
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* [r2014] Again...
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* [r2013] Update ChangeLog (again)
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* [r2012] Summary: Correct man page name
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* [r2011] Summary: Forgot to add \alias for smartlegend.
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* [r2010] Remove leftover alias
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* [r2009] Commit ChangeLog
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* [r2008] Update NEWS again.
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* [r2007] Mark boxplot.n and() plot.lm2() as defunct.
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* [r2006] Make ballonplot.n() and plot.lm2() 'defunct'.
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* [r2005] Update NEWS and ChangeLog again.
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* [r2004] Summary: Punctuation.
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* [r2003] Correct URLs in man pages.
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* [r2002] Correct URLs in man pages.
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* [r2001] Update NEWS again.
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* [r2000] Improve package description.
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* [r1999] Mark 'smartlegend' as deprecated
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* [r1998] Summary: Mark smartlegend() as deprecated.
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* [r1997] Summary: venn example used 'F' instead of 'FALSE'.
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* [r1996] Update DESCRIPTION, NEWS, and ChangeLog again for gplots
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2.17.0.
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* [r1995] - heatmap.2: row traces could be plotted in the wrong
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order.
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* [r1994] - heatmap.2: column traces could be plotted in the wrong
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order.
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- heatmap.2: add support for plotting sub-clusters of the full
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row and
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column dendrograms
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2015-04-23 warnes
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* [r1955] Update NEWS and ChangeLog
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* [r1954] In heatmap.2(), the color key now properly handles color
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breaks that
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are not equally spaced. (Issue reported by Tim Richter-Heitmann.)
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* [r1948] - plotCI() was not properly respecting the 'type='
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argument. This has
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been corrected.
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* [r1947] - Remove stray browser() call from overplot()
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* [r1943] Explicitly specify argument to gplots:::reorder.factor to
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prevent error.
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* [r1942] - The returned object from venn() now includes a
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'interesection'
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attribution containing a list of which items are in each set
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intersection. This can be turned off by settting
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'intersection=FALSE'.
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* [r1941] Patch submitted by Ilia Kats:
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- easily extract and plot subclusters from a big heatmap using
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the
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same colorkey, by passing a dendgrogram of the subcluster
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together
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with the full data matrix and, optionally, the breaks of the full
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heatmap in order to obtain the same color scaling. This is useful
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if
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one wants to plot several subclusters as different panels in a
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paper, but maintain consistent color coding.
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- Improves the behavior of the color key axis labels, as they now
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honor par("cex") and par("cex.lab").
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* [r1940] In heatmap.2() split calls to distfun() and hclustfun()
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into separate steps to make debugging easier
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2015-04-22 warnes
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* [r1931] Update DESCRIPTION, ChangeLog, and NEWS for gplots 2.17.0
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* [r1930] heatmap.2: add new 'colRow' and 'colCol' arguments to
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control the color of row and column text labels
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2015-04-06 warnes
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* [r1916] Add ChangeLog files to repository
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2015-01-02 warnes
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* [r1913] Update for gplots release 2.16.0.
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* [r1912] Change default group count lable back to 'n='.
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* [r1911] - plotmeans: Pass optional graphical arguments captured
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in '...' axis function
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used to draw the x axis.
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- plotmeans: Add an new argument 'text.n.label' to specify the
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text
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used for labelingthe number of elements in a group.
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* [r1910] - Remove S-Plus-specific code
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- Simplify model frame code
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2014-12-03 warnes
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* [r1909] Update stored test output to account for new startup
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message from KernSmooth package
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* [r1908] Fix package title capitalization.
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2014-12-02 warnes
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* [r1907] Add descrioption of node stack overflow issue and
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work-around.
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* [r1906] Move '...' argument to bandplot.formula to match man
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page.
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* [r1905] plot.dendrogram isn't exported by gplots, so it must be
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referenced using the ':::' notation.
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* [r1904] Man page fixes.
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* [r1903] Add exports of new bandplot methods to NAMESPACE file.
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* [r1902] Code cleanup.
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* [r1901] Simplify model.frame code for bandplot.formula.
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2014-12-01 warnes
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* [r1900] Update for 2.15.0
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* [r1899] Convert bandplot to S3-method dispatch and add method for
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class formula.
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* [r1898] Improve whitespace
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2014-09-17 warnes
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* [r1895] Minor reformatting.
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* [r1894] Explicitly reset namespace for dendrogram functions
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copied from stats.
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* [r1893] Update DESCRIPTION and NEWS for gplots 2.14.2
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* [r1892] To work around recursion limit issues triggered by deeply
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nested
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dendrograms, (1) create a local *intepreted* copy of
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stats:::plotNode(), (2) detect recursion limit error message
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within
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heatmap.2() and generate a more user-friendly message.
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* [r1891] Add test case for exceeding recursion limits when
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plotting deeply nested dendrograms
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* [r1890] heatmap.2 was not properly handling integer vectors for
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Rowv and Colv.
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* [r1889] key.title=NA was not being honored when density.info=NA.
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2014-09-16 warnes
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* [r1888] Add plotNode code to allow modificaiton of algorithm from
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recursive to iterative for the purpose of avoiding node stack
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overflow.
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* [r1887] - Correct statement of default color for 'notecol'
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argumemt to 'heatmap.2'.
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- Modify default arguments to 'symbreaks' and 'symkey' to make
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the
|
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logic more evident by replacing min() with any(). (The previous
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code executed properly, but relied on implicit coercion of
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logicals
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to numeric, obscuring the intent.)
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2014-06-30 warnes
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* [r1823] Fix typo in dendrogram size checking code.
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|
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2014-06-19 warnes
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* [r1822] Fix typo 'ColInd' --> 'colInd'.
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* [r1821] Update for gplots 2.14.0
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2014-06-17 warnes
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* [r1820] - Document new 'key.title', 'key.xlab', 'key.ylab',
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'key.xtickfun',
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'key.ytickfun', 'key.par' arguments to heatmap.2 (belated
|
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commit).
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- Document new 'reorderfun' argument to heatmap.2.
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* [r1819] Allow user to specify function used to reorder based on
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the dendogram
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via a new 'reorderfun' argument. Suggested by Yuanhua Liu.
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* [r1818] Fix typo in heatmap.2() reported by Yuanhua Liu.
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2014-06-05 warnes
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* [r1817] Check size of Rowv and Colv dendogram objects to ensure
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they matches data.
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2014-04-17 warnes
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* [r1812] Add see also to r2d2::freq2d.
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* [r1811] Add reference to r2d2::conf2d.
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2014-04-09 warnes
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* [r1802] Add padj=0.5 to better align margin labels.
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2014-04-05 warnes
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* [r1781] Update NEWS
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* [r1780] Add 'extrafun' argument to heatmap.2 to allow the user to
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perform
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additional customization by providing a function to be called
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before
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heatmap.2 exits.
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2014-04-04 warnes
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* [r1779] Update for gplots 2.13.0
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* [r1778] Fix handling of row trace (hline). Bug report and patch
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provided by Ilia Kats.
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2013-10-21 warnes
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* [r1744] Handle 'ask' argument in lmplot2 function proper, rather
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than in (depreciated) plot.lm2 wrapper.
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* [r1743] Correct release number
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* [r1742] Handle 'ask' argument in lmplot2 function proper, rather
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than in (depreciated) plot.lm2 wrapper.
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* [r1741] Fix typo
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|
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2013-10-15 warnes
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* [r1740] Add boxplot2 and lmplot2 to NAMESPACE
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* [r1739] Update for gplots release 2.12.1
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* [r1738] Rename boxplot.n to boxplt2 and plot.lm2 to lmplot2
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* [r1737] Make lmplot2 manual page from plot.lm.2 manual page.
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* [r1736] Make boxplot2 manual page from boxplot.n manual page.
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* [r1735] Create deprecated man page from boxplot.n man page
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2013-10-12 warnes
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* [r1734] Update NEWS with latest changes
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* [r1733] Mark one example dontrun to avoid --as-cran warning.
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2013-10-11 warnes
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* [r1732] Allow standard S3 method handling to locate the correct
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function.
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* [r1731] Fix error when a subgroup contains no finite values
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* [r1730] Update test output
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* [r1729] Move several packages from Depends to Imports, Suggests
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* [r1728] Use gdata::nobs in example
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* [r1727] caTools and KernSmooth now have namespaces, so import
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from them.
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* [r1726] Update files for gplots 2.12.0
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* [r1725] Update files for gplots 2.12.0
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* [r1724] Add parameters to control row and column label
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positioning, rotation, justification, and offset.
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* [r1723] Fix bug in getVennCounts.data.frame when number of TRUE
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cases in each variable are equal.
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2013-06-28 warnes
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* [r1680] Update PDF file, including new email addresses
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2013-06-27 warnes
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* [r1679] Update for gplots 2.11.3
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* [r1678] Update for release 2.11.3
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* [r1677] Update with tests for only 1 row/column separator
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* [r1676] Fix typo
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* [r1675] Add test for one row/column separator
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* [r1674] Add more in-line comments
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* [r1673] Modify sinkplot to use a local environement to store its
|
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information instead of the global environment.
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2013-03-24 warnes
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|
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* [r1647] Update news for release 2.11.2
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* [r1646] Add ci.width argument to barplot2() to allow varying the
|
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length of the 't' at the end of confidence interval bars.
|
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* [r1642] Update for release 2.11.2
|
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* [r1641] Update manual page for lowess.default() to match changed
|
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argument list for lowess() in R 3.0.0
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2012-12-14 warnes
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* [r1631] Fix typo: warn() instead of warning().
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* [r1630] Fix syntax of VignetteIndexEntry in venn.Rnw.
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* [r1629] Add generated vignette pdf.
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* [r1628] Add required VignetteIndexEntry metadata to venn vignette
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code.
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* [r1627] Update DESCRIPTION and NEWS for release 2.11.1.
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* [r1626] Improve venn() to work with PDF and Sweave/pdflatex.
|
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Provide a vignette for venn().
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* [r1625] Fix error in processing the colsep argument to heatmap.2.
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* [r1624] Clarify that plotmeans is intended for a *continuous*
|
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outcome based on
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a *factor* grouping level.
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* [r1623] Replace corrupted BalloonPlot.pdf file and remove svn
|
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properties that were causing it to be corrupted.
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2012-06-08 warnes
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|
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* [r1558] Update NEWS for 2.11.0 release.
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* [r1557] Fix R CMD check warnings.
|
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* [r1556] Move incorrectly placed closing brace.
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2012-06-07 warnes
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* [r1555] Object returned by hist2d() has been changed:
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- $x and $y now contain the n midpoints of the bins in each
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direction
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- $x.breaks, $y.breaks now contain the n+1 limits of the bins in
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each direction
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The function print.hist2d() has been updated appropriately.
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* [r1554] Correct error in handling binning: (N+1)x(N+1) bins were
|
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being created
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instead of NxN bins, and the highest row/column in each direction
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was
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|
being omitted from the results and plot.
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* [r1553] Add default value for lwd argument to plotmeans()
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2012-05-31 warnes
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* [r1533] Properly mark up S3 method.
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2011-12-09 warnes
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* [r1519] Add 'lwd' (linewidth) to arguments handled by plotmeans.
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2011-09-02 warnes
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* [r1505] Update NEWS for release 2.10.1.
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* [r1504] Increment version counter.
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* [r1503] Add necessary alias statment to man files for for
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'hist2d' and 'ci2d'
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print methods.
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* [r1502] Fix naming error
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* [r1501] Provide print() methods for 'hist2d' and 'ci2d' objects.
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* [r1498] Correct dependence on R >= 2.10
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2011-09-01 warnes
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|
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* [r1491] - Correct issues in ci2d() man page.
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* [r1490] - Comment out import from KernSmooth in NAMESPACES, since
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KernSmooth
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doesn't provide a namespace.
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- Update a test output.
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* [r1489] - Update NEWS file and correct version number
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* [r1488] - Depend on KernSmooth package. Increment version number.
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* [r1487] - Depend on KernSmooth package and import 'bkdeD2' and
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'dpik'.
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* [r1486] Improvements to ci2d():
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|
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- Add option to utilize KernDensity::bkde2D to estimate the 2-d
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density (now the default).
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|
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- Add option to display points for original data on generated
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plots
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|
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- Name elements of returned contour list according to the
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significance
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level to make it easier to select desired contours.
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|
|
|
- Improve handling of x and y labels
|
|
* [r1485] Remove log tag and comments from top of the file.
|
|
|
|
2011-08-26 warnes
|
|
|
|
* [r1478] Update NEWS for 2.10.0 release
|
|
* [r1477] Add dependency on R>= 2.10 to handle compressed Rda data
|
|
file.
|
|
* [r1476] Compress rtPCR example data set to make distributed
|
|
package smaller.
|
|
* [r1475] Remove '1.0' confidence line from
|
|
ci2d(..,show="contour").
|
|
|
|
2011-08-25 warnes
|
|
|
|
* [r1474] - Add 'ci2d()' to compute 2-dimensional emipirical
|
|
confidence interval.
|
|
- Fix parse error in help page for 'rich.colors()'.
|
|
|
|
2011-08-16 warnes
|
|
|
|
* [r1473] Update DESCRIPTION file for 2.8.1.
|
|
* [r1472] Add 'alpha' argument to rich.colors() to control
|
|
transparency.
|
|
* [r1471] Accellerate hist2d by replacing for() loop with tapply(),
|
|
and allow user to specify summary function applied, per
|
|
suggestion by Peter Hagedorn (PHA -at- santaris -dot- com).
|
|
|
|
2011-05-02 arnima
|
|
|
|
* [r1470] Added argument 'alpha' and removed argument 'rgb' in
|
|
rich.colors()
|
|
|
|
2010-12-13 warnes
|
|
|
|
* [r1463] Correct error that arises when data includes NA values,
|
|
identified by Melissa Key
|
|
|
|
2010-06-11 warnes
|
|
|
|
* [r1446] Fix errors detected by R CMD check
|
|
* [r1445] Fix errors detected by R CMD check
|
|
* [r1444] Use 'TRUE' instead of 'T' for true in venn man page
|
|
* [r1443] Update for gplots 2.8.0
|
|
* [r1442] Moved baseOf() into a separate file
|
|
* [r1441] Update Greg's email address
|
|
* [r1440] - venn() now returns an object of class venn() and a plot
|
|
method for
|
|
this class is provided.
|
|
|
|
- Manual page for venn has been improved, based on contributions
|
|
by
|
|
Steffen Moeller
|
|
|
|
2010-02-17 warnes
|
|
|
|
* [r1420] Improve performance of hist2d thanks to suggestion by
|
|
Joerg van den Hoff.
|
|
|
|
2010-01-22 arnima
|
|
|
|
* [r1372] Renamed files rich.color.* to rich.colors.* and renamed
|
|
rich.colors args
|
|
|
|
2009-11-16 arnima
|
|
|
|
* [r1367] Minor reformatting only.
|
|
|
|
2009-11-12 warnes
|
|
|
|
* [r1365] Correct bug reported by Alan Yong: plotmeans() crashed
|
|
when 'bars=FALSE'.
|
|
|
|
2009-10-22 warnes
|
|
|
|
* [r1364] Fixed typo in bug fix.
|
|
* [r1363] Update NEWS and DESCRIPTION for gplots 2.7.3
|
|
* [r1362] Fix transposed display of data (but not labels) in
|
|
heatmap.2 when symm=TRUE
|
|
|
|
2009-10-12 warnes
|
|
|
|
* [r1361] Update version number to 2.7.2, 2.7.1 was already up but
|
|
apparently DESCRIPTION wasn't commited with change.
|
|
|
|
2009-10-10 warnes
|
|
|
|
* [r1360] Various minor changes to remove new R CMD CHECK warnings.
|
|
* [r1359] Update DESCRIPTION and NEWS file for 2.7.1
|
|
* [r1358] Fix bug reported by Ken Lo: col2hex had blue and green
|
|
components swapped.
|
|
|
|
2009-05-08 warnes
|
|
|
|
* [r1324] Add test of using a dendrogram created by heatmap() with
|
|
heatmap.2()
|
|
* [r1323] heatmap.2: handle NA for RowV or ColV the same way as
|
|
NULL
|
|
* [r1322] Fix typo
|
|
* [r1321] Update NEWS for release 2.7.0
|
|
* [r1320] We don't want the Changelog in svn, since it is
|
|
autogenerated from svn logs!
|
|
* [r1319] Update Greg's email address to
|
|
'greg@random-technologies-llc.com'
|
|
* [r1318] plotCI now properly handles 'NULL' and 'NA' values for
|
|
ui, li, uiw, and liw.
|
|
* [r1317] heatmap.2: Add option to create breakpoints symmetric
|
|
around 0, provide additional information in the return value
|
|
* [r1316] Fix Rd syntax error
|
|
|
|
2009-04-22 warnes
|
|
|
|
* [r1315] VADeaths data set has move to dataset package
|
|
|
|
2008-08-14 warnes
|
|
|
|
* [r1302] balloonpot() was incorrectly displaying warning about z
|
|
values below 0 when scale.method="relative". Fixed.
|
|
|
|
2008-08-07 warnes
|
|
|
|
* [r1301] Update DESCRIPTION NAMESPACE and NEWS for 2.7.0 release
|
|
|
|
2008-06-16 warnes
|
|
|
|
* [r1296] Add TODO list to gplots
|
|
|
|
2008-05-20 warnes
|
|
|
|
* [r1274] Update man page to match recent changes to plot.lm2()
|
|
* [r1273] More work on documentation for venn()
|
|
* [r1272] Fix code/doc mismatch due to recent changes to bandplot()
|
|
* [r1271] Add Venn Diagram plot submitted by Steffen Moeller
|
|
|
|
2008-05-07 warnes
|
|
|
|
* [r1264] Improve performance of bandplot by calculating running
|
|
standard deviation using caTools::runsd() instead of (ver slow)
|
|
window() call. In addtion, the standard deviations are now only
|
|
calculated once, rather than once for each band.
|
|
* [r1263] Improve performance of plot.lm for large lm objects by
|
|
using fitted() instead of predict() to get y-hat
|
|
|
|
2008-05-05 warnes
|
|
|
|
* [r1262] Use caTools's runsd in bandplot for a dramatic speedup
|
|
for large data
|
|
* [r1261] Add import of gtools::reorder.factor for ballonplot man
|
|
page
|
|
* [r1260] balloonplot: Add option to scale balloons so
|
|
[min,max]->[0,1] (relative) or so [0,max] <- [0,1] (absolute)
|
|
|
|
2008-04-07 warnes
|
|
|
|
* [r1254] Fix typo in barplot2() man page
|
|
* [r1253] Updates for gplots 2.6.0
|
|
* [r1252] Add ability to control location of individual heatmap.2
|
|
components
|
|
|
|
2008-03-27 warnes
|
|
|
|
* [r1251] Fix bug in handling rowsep, per suggestion by Steven
|
|
Paugh
|
|
|
|
2008-01-04 warnes
|
|
|
|
* [r1238] Fix examples for overplot()
|
|
|
|
2008-01-02 warnes
|
|
|
|
* [r1237] Update Marc's email address
|
|
|
|
2007-12-20 warnes
|
|
|
|
* [r1235] Two letter clarification of help text for heatmap.2()
|
|
* [r1234] Restore plot layout at end of ooplot() example
|
|
|
|
2007-11-06 warnes
|
|
|
|
* [r1222] Remove extraneous closing brace in the hist2d
|
|
documentation file
|
|
|
|
2007-11-05 warnes
|
|
|
|
* [r1221] Fix typo in NEWS: col2hex() is the new function, not
|
|
col2rgb() which is part of grDevices
|
|
|
|
2007-11-02 warnes
|
|
|
|
* [r1219] Updates for gplots 2.5.0
|
|
* [r1218] Update saved test output due to changes in how R reports
|
|
warnings
|
|
* [r1217] Create soft links of gmodels/ChangeLog ->
|
|
gmodels/inst/ChangeLog, and gmodels/NEWS -> gmodels/inst/NEWS for
|
|
my convenience
|
|
* [r1216] Move actual ChangeLog and NEWS files to gmodels/inst so
|
|
they will be copied into the installed R package area
|
|
* [r1215] Fix code/doc mismatches
|
|
* [r1214] Update plot.lm2 to match changes made to bandplot
|
|
|
|
2007-11-01 warnes
|
|
|
|
* [r1213] in textplot(), convert tab characters to spaces before
|
|
processing to avoid problems with computing height and width of
|
|
text including tabs when using pdf()
|
|
* [r1212] Minor reformatting of overplot code and docs
|
|
|
|
2007-10-22 warnes
|
|
|
|
* [r1196] Clarify GPL version
|
|
|
|
2007-08-14 warnes
|
|
|
|
* [r1141] Correct error in balloonplot when z contains NA values.
|
|
* [r1140] Augment balloonplot() with control of character size and
|
|
color for text and label items
|
|
* [r1139] Correct balloonplot.default to properly show specified x
|
|
and y axis labels when explicitly provided
|
|
|
|
2007-03-09 ggorjan
|
|
|
|
* [r1073] use of \method in Rd markup - issues a warning with
|
|
_R_CHECK_RD_STYLE_=TRUE env. variable with R 2.5.0
|
|
|
|
2007-02-08 warnes
|
|
|
|
* [r1052] Bump version number
|
|
* [r1051] Update documentation for textplot()
|
|
* [r1050] Add col2rgb() function to convert color names to rgb hex
|
|
codes
|
|
* [r1049] Add paramaeters 'col.data', 'col.rows', and 'col.columns'
|
|
to
|
|
textplot.matrix to allow specification of the color of the matrix
|
|
data, rows, and columns.
|
|
* [r1048] Add parameters to control line width and line type.
|
|
|
|
2006-11-14 ggorjan
|
|
|
|
* [r1012] Removed executable property
|
|
|
|
2006-11-14 warnes
|
|
|
|
* [r1010] Update output file to match (trivial) changes in the test
|
|
code.
|
|
* [r1008] Update ChangeLog and NEWS files for release 2.3.2.
|
|
* [r1007] Update version number
|
|
* [r1006] Update version number and maintainer
|
|
* [r1005] Correct problem with labeled correlation matrix example.
|
|
Thanks to Jean Vidal for reporting the error..
|
|
|
|
2006-08-02 warnes
|
|
|
|
* [r977] Update my email address
|
|
|
|
2006-06-26 nj7w
|
|
|
|
* [r967] Fixed a bug which displayed warnings when Rowv and Colv
|
|
were specified as dendrograms
|
|
|
|
2006-03-10 warnes
|
|
|
|
* [r937] Remove code that added a local path
|
|
|
|
2006-03-09 nj7w
|
|
|
|
* [r935] Added the correct library path where gplots is installed
|
|
locally and corresponding .save file
|
|
* [r934] Updated the tests file
|
|
* [r933] Removed the condition Colv != Rowv as it has already been
|
|
taken care of
|
|
* [r932] Deleted rtPCR.rda from the main directory
|
|
* [r931] Added ChangeLog
|
|
|
|
2006-03-07 nj7w
|
|
|
|
* [r919] Updated ChangeLog and NEWS
|
|
* [r918] Added the tests and fixed corrupted files
|
|
* [r917] Replaced the corrupted rtPCR.rda file in data directory
|
|
* [r916] Removed the corrputed tests directory
|
|
* [r915] Replaced the corrupted rtPCR.rda file in data directory
|
|
|
|
2006-03-03 nj7w
|
|
|
|
* [r914] Updated the code and man page to make sure the Rowv and
|
|
Colv values are properly handled
|
|
|
|
2006-03-02 warnes
|
|
|
|
* [r908] Adjust row total placement to adjust for width of the
|
|
totals
|
|
* [r907] Row totals in ballonplot were in reverse order. Fixed.
|
|
|
|
2006-02-23 nj7w
|
|
|
|
* [r899] Add ability to scale the color key using the new 'keysize'
|
|
argument.
|
|
* [r898] Add tests for heatmap.2
|
|
* [r897] Move heatmap and ballonplot paper source materials to
|
|
their respective cvs modules
|
|
* [r896] Moved balloonplot paper materials to BallonPlotPaper cvs
|
|
module
|
|
* [r891] Remove heatmap paper files and move them to the
|
|
HeatmapPaper cvs module.
|
|
* [r888] Added figures for heatmap2 paper
|
|
* [r887] Added the .Rda files for the heatmap2 paper
|
|
* [r886] Added the source - (tex file) of the heatmap paper
|
|
* [r885] Added the code for the figures of heatmap paper
|
|
|
|
2006-02-21 nj7w
|
|
|
|
* [r884] Minor updates to heatmap.2 - fixed Rowv, Colv and
|
|
dendrogram behaviour. Now Rowv=NULL or FALSE both imply no
|
|
dendrogram computation.
|
|
|
|
2006-01-12 warnes
|
|
|
|
* [r844] more updates
|
|
* [r843] Add Biometrica bibliography style file
|
|
* [r842] A little more.
|
|
* [r841] Updates to respond to referee.
|
|
|
|
2006-01-12 nj7w
|
|
|
|
* [r840] Added references
|
|
|
|
2005-12-13 nj7w
|
|
|
|
* [r811] Fixed Nitin's company name
|
|
* [r809] Updated NEWS and removed ChangeLog
|
|
|
|
2005-12-12 nj7w
|
|
|
|
* [r802] Fixed bug in plotmeans - based on Stefano Calza's
|
|
suggestion
|
|
|
|
2005-12-07 nj7w
|
|
|
|
* [r787] Updated version number
|
|
* [r786] Added plot.lm
|
|
* [r785] Changed the default grey colors to heat colors, if height
|
|
is matrix
|
|
* [r784] Changed the default greay colors to heat colors, if height
|
|
is matrix
|
|
|
|
2005-12-06 nj7w
|
|
|
|
* [r783] Fixed minor error in documentation of barplot2
|
|
|
|
2005-12-02 warnes
|
|
|
|
* [r777] Remove .Alias calls, since .Alias is defunct.
|
|
|
|
2005-12-01 nj7w
|
|
|
|
* [r776] Updated Greg's email address
|
|
|
|
2005-11-23 nj7w
|
|
|
|
* [r764] Updated Figure 2 colors
|
|
|
|
2005-11-18 warnes
|
|
|
|
* [r743] Latest version of the pdf files
|
|
* [r742] Nitin works for the Cambrige Group, not Pfizer.
|
|
* [r741] Minor text rewording.
|
|
* [r740] More edits.
|
|
* [r739] Recent changes to align row totals with the overall total
|
|
broke how
|
|
the marginal cumulative fractions were displayed. This patch
|
|
fixes
|
|
the problem.
|
|
* [r737] - Update documentation for balloonplot to match the latest
|
|
code.
|
|
- Correct spelling of 'show.zeroes' to 'show.zeros'
|
|
* [r736] More changes: colorpanel now allows only 2 colors to be
|
|
specified if
|
|
no 'middle' color is desired.
|
|
|
|
2005-11-17 warnes
|
|
|
|
* [r735] Allow user to control removal of duplicate entries in
|
|
balloonplot.
|
|
* [r734] Extend colorpanel to handle just two-colors in addition to
|
|
three.
|
|
|
|
2005-11-09 nj7w
|
|
|
|
* [r733] Updated the pdf file
|
|
* [r732] Updated the changes
|
|
* [r731] Modified figure 4
|
|
* [r730] Updated code
|
|
* [r729] Modified figure 3
|
|
* [r728] Modified figure 2
|
|
* [r727] Modified figure 1
|
|
|
|
2005-11-08 nj7w
|
|
|
|
* [r726] Updated Greg's email
|
|
|
|
2005-11-07 nj7w
|
|
|
|
* [r725] Minor modifications to fit the code properly on pdf
|
|
|
|
2005-11-07 warnes
|
|
|
|
* [r724] Add R code that generates plots
|
|
* [r723] Add figures to CVS
|
|
* [r722] Text changes
|
|
|
|
2005-11-04 warnes
|
|
|
|
* [r721] Fix some alignment issues.
|
|
* [r720] Remove Table.pdf since it is no longer needed
|
|
* [r719] Nitin's Changes
|
|
* [r718] Add figure plots
|
|
* [r717] Fix paths
|
|
|
|
2005-10-20 nj7w
|
|
|
|
* [r705] added the eps version of figures
|
|
* [r704] Updated BallonPlot.pdf
|
|
* [r703] Removed Old Figure
|
|
* [r702] Added the new figure - for total popluation - Balloonplot
|
|
* [r701] Modified the BallonPlot article
|
|
* [r700] Added references
|
|
|
|
2005-10-19 arnima
|
|
|
|
* [r697] The last example now displays the correct heat.colors.
|
|
Default 'palette' argument is now a single string, not a vector.
|
|
* [r696] Default 'palette' argument is now a single string, not a
|
|
vector.
|
|
|
|
2005-10-14 warnes
|
|
|
|
* [r694] Formatting fixes:
|
|
- Handle multiple row or column category variables
|
|
- Separate rows/columns of category labels by lines
|
|
- Fix handling of 'cumsum' plots on row/column labels
|
|
- Improve display of row/column sums
|
|
|
|
2005-10-13 warnes
|
|
|
|
* [r693] Add example using Titanic data that exercises the
|
|
multi-factor
|
|
display.
|
|
|
|
2005-10-11 warnes
|
|
|
|
* [r692] Initial changes to allow multiple x and y factor
|
|
variables. Yet to
|
|
be done: 1) remove extra 'boxes'. 2) omit duplicated values
|
|
|
|
2005-10-04 warnes
|
|
|
|
* [r691] more minor fixes
|
|
* [r690] fix spacing
|
|
* [r689] Inlcude Rnews.sty
|
|
* [r688] Some textual edits.
|
|
|
|
2005-10-03 nj7w
|
|
|
|
* [r687] Added figures for the R-News Article
|
|
|
|
2005-09-29 nj7w
|
|
|
|
* [r680] Updated the documentation - added the name of the person
|
|
who asked the question
|
|
* [r679] Added R-news article
|
|
|
|
2005-09-12 nj7w
|
|
|
|
* [r671] Updated Greg's email
|
|
* [r670] Updated version of balloonplot - by Romain Francois
|
|
<francoisromain@free.fr>
|
|
|
|
2005-09-09 nj7w
|
|
|
|
* [r669] Updated the version and ChangeLog
|
|
* [r668] Changes in ballon plot based on Romain Francois
|
|
(francoisromain@free.fr) suggestions
|
|
|
|
2005-09-06 nj7w
|
|
|
|
* [r666] Updated package dependencies
|
|
* [r665] Added NEWS
|
|
|
|
2005-09-02 nj7w
|
|
|
|
* [r655] Added ChangeLog
|
|
|
|
2005-08-31 nj7w
|
|
|
|
* [r644] Added DESCRIPTION file
|
|
* [r643] removed DESCRIPTION.in
|
|
|
|
2005-06-09 nj7w
|
|
|
|
* [r625] Updating the version number, and various help files to
|
|
synchronize splitting of gregmisc bundle in 4 individual
|
|
components.
|
|
* [r624] Changes based on Marc Schwartz's suggestions to handel 0's
|
|
and NA's appropriately.
|
|
|
|
2005-05-13 nj7w
|
|
|
|
* [r621] 1) Using dQuote.ascii function in read.xls as the new
|
|
version of dQuote doesn't work proprly with UTF-8 locale.
|
|
2) Modified CrossTable.Rd usage in gmodels
|
|
3) Modified heatmap.2 usage in gplots.
|
|
|
|
2005-04-04 warnes
|
|
|
|
* [r603] Explicitly reference package containing lowess.formula in
|
|
panel.overplot(). This should fix the error reported by Troels
|
|
Ring
|
|
<tring@gvdnet.dk>.
|
|
|
|
2005-02-26 nj7w
|
|
|
|
* [r565] *** empty log message ***
|
|
|
|
2005-02-25 warnes
|
|
|
|
* [r563] Integrate changes submitted by Arni Magnusson
|
|
* [r559] Add dependency imports from 'stats' package.
|
|
|
|
2005-02-22 warnes
|
|
|
|
* [r555] Fix problem in passing graphical parameters (xlim,etc).@
|
|
|
|
2005-02-08 warnes
|
|
|
|
* [r541] Improve package title.
|
|
* [r540] Ignore missing values when computing symmetric range.
|
|
|
|
2005-02-02 warnes
|
|
|
|
* [r530] Add more extensive example.
|
|
|
|
2005-01-14 warnes
|
|
|
|
* [r516] Code can be simplified because R now supports selecting a
|
|
fixed width font.
|
|
|
|
2005-01-12 warnes
|
|
|
|
* [r515] Add dependency on R 1.9.0+ to prevent poeple from
|
|
installing on old
|
|
versions of R which don't support namespaces.
|
|
|
|
2004-11-30 warnes
|
|
|
|
* [r495] 1. Add new parameters for controlling color key:
|
|
- If `symkey==TRUE', the color key will be made symmetric about
|
|
0.
|
|
- The `densadj' parameter can be used to modify the smoother
|
|
width
|
|
(see the `adjust' parameter under `help(density)') for the
|
|
density
|
|
plotted in the key.
|
|
|
|
2. Fix handling of rowsep/colsep.
|
|
|
|
3. Vector of length 2 giving the width (colsep) or height
|
|
(rowsep) the separator box
|
|
drawn by colsep and rowsep as a function of the width (colsep) or
|
|
height (rowsep) of a cell.
|
|
|
|
4. Appropriate changes to the corresponding help page, plus some
|
|
minor formatting changes.
|
|
|
|
2004-11-03 warnes
|
|
|
|
* [r474] Fix bugs in layout of cell notes. They were being plotted
|
|
top down
|
|
rather than bottom up. Further reordering of the x matrix didn't
|
|
also reorder the notes. Both issues should now be resolved.
|
|
|
|
2004-09-27 warneg
|
|
|
|
* [r461] Updated to pass R CMD check.
|
|
|
|
2004-09-03 warneg
|
|
|
|
* [r453] Provide explicit package for call to nobs.
|
|
* [r452] Fix typos.
|
|
* [r446] initial bundle checkin
|
|
|
|
2004-09-02 warneg
|
|
|
|
* [r442] Initial revision
|
|
|
|
2004-07-29 warnes
|
|
|
|
* [r426] Integrate changes from the version of plotCI maintained by
|
|
Martin Maechler.
|
|
|
|
2004-06-30 warnes
|
|
|
|
* [r393] Remove commented-out code.
|
|
* [r392] Fixed text size calculations
|
|
|
|
2004-06-28 warnes
|
|
|
|
* [r391] - Default 2-d color set to grey as in (v2.0.0) r-devel
|
|
- The default (v1.9.1) barplot method now handles vectors and 1-d
|
|
arrays
|
|
(e.g., obtained by table()) the same, and uses grey instead of
|
|
heat color palettes in these cases. (Also fixes PR#6776.)
|
|
- Updated to reflect the addition of 'offset' argument in base
|
|
- Fix bug in stacked barplots, which would not be plotted
|
|
properly
|
|
|
|
2004-06-24 warnes
|
|
|
|
* [r385] Add ability to specify color of NA cells.
|
|
|
|
2004-05-27 warnes
|
|
|
|
* [r349] Fix spelling error.
|
|
|
|
2004-05-26 warnes
|
|
|
|
* [r347] One more fix to get it right.
|
|
* [r346] Use triple-colon operator ':::' to access plot.formula
|
|
from the graphics package.
|
|
* [r344] Replace 'F' by 'FALSE' to pass R CMD check.
|
|
|
|
2004-05-25 warnes
|
|
|
|
* [r338] Work around bug in R 1.9.X due to plot.formula() not
|
|
having the same
|
|
arguments as plot().
|
|
* [r336] Add rich.colors() submitted by Arni Magnusson
|
|
<arnima@u.washington.edu>.
|
|
* [r328] ??
|
|
|
|
2004-05-24 warnes
|
|
|
|
* [r324] Modified to use invalid() to check arguments instead of
|
|
missing().
|
|
This fixes some build errors under R-1.9.0-Patched.
|
|
|
|
2004-04-22 warnes
|
|
|
|
* [r319] Integrate changes from Lodewijk Bonebakker
|
|
<bonebakker@comcast.net>
|
|
|
|
2004-04-13 warnes
|
|
|
|
* [r318] Add ability to space points along 'y' direction.
|
|
|
|
2004-04-02 warnes
|
|
|
|
* [r313] Fixed smartlegend() positioning when x and/or y axis are
|
|
log-scale.
|
|
|
|
2004-03-30 warnes
|
|
|
|
* [r311] - Fix bug in textplot() reported by Wright, Kevin
|
|
<kevin.d.wright@pioneer.com>.
|
|
|
|
2004-03-26 warnes
|
|
|
|
* [r305] Update to match changes in textplot() code.
|
|
* [r304] Remove Windows EOL characters.
|
|
* [r302] - Remove some commented-out code.
|
|
- Remove cvs log tag.
|
|
* [r300] Misc changes.
|
|
|
|
2004-02-17 warnes
|
|
|
|
* [r290] Minor fix to ooplot documentation.
|
|
* [r289] Integrate ooplot updates provided by Lodewijk Bonebakker
|
|
<bonebakker@comcast.net>
|
|
|
|
2004-02-02 warnes
|
|
|
|
* [r287] - Add colorpanel function, which generates a smoothly
|
|
varying band of
|
|
colors over a three color range (lo, mid, high).
|
|
|
|
2004-01-21 warnes
|
|
|
|
* [r283] - Correct arguments to halign to match code.
|
|
* [r281] Track R 1.9.0's move of 'lowess' from the base package to
|
|
the (new)
|
|
stats package.
|
|
* [r279] - Fix sinkplot() example by replacing 'T' with 'TRUE'.
|
|
* [r278] - Add some more details to the ooplot() documentation. The
|
|
documentation is *not* complete.
|
|
* [r277] - Mark sprint() as depreciated.
|
|
- Replace references to sprint with capture.output()
|
|
- Use match.arg for halign and valign arguments to
|
|
textplot.default.
|
|
- Fix textplot.character so that a vector of characters is
|
|
properly
|
|
displayed. Previouslt, character vectors were plotted on top of
|
|
each
|
|
other.
|
|
|
|
2004-01-19 warnes
|
|
|
|
* [r276] New function sinkplot(), as requested on R-devel by Kevin
|
|
Wright
|
|
<kwright@eskimo.com> in
|
|
https://www.stat.math.ethz.ch/pipermail/r-devel/2004-January/028483.html.
|
|
|
|
2004-01-15 warnes
|
|
|
|
* [r274] Add initial code and docs for ooplot() function submitted
|
|
by Lodewijk
|
|
Bonebakker <bonebakker@comcast.net>.
|
|
|
|
2003-12-03 warnes
|
|
|
|
* [r253] - match function argument defaults with 'usage'
|
|
* [r252] - Fix buglets in heatmap function
|
|
- Make a slight enhancement to the example code.
|
|
|
|
2003-12-02 warnes
|
|
|
|
* [r251] Integrated some suggestions from Sean Davis
|
|
<sdavis2@mail.nih.gov>.
|
|
* [r250] - Make final example use 16 colors instead of 8. This
|
|
looks nicer.
|
|
* [r248] - Remove '%' character from example code to avoid errors.
|
|
* [r247] - Add '...' parameter to call to text to allow user to
|
|
control size/color/etc.
|
|
|
|
2003-12-01 warnes
|
|
|
|
* [r246] - updated to match changes to barplot() in base.
|
|
* [r245] - Renamed rtPCR.Rda to rtPCR.rda so that R will properly
|
|
load the file
|
|
when data(rtPCR) is executed.
|
|
* [r243] - Follow patches applied to barplot() in base.
|
|
|
|
2003-11-24 warnes
|
|
|
|
* [r242] Fix unbalanced braces.
|
|
* [r240] Fix errors reported by R CMD check.
|
|
|
|
2003-11-21 warnes
|
|
|
|
* [r239] Added missing closing brace.
|
|
* [r238] Initial addition of these files. Used in examples of
|
|
overplot().
|
|
* [r236] Applied my enhancements to the heatmap() code from R
|
|
1.8.0, and added
|
|
documentation of these changes.
|
|
* [r235] - Discovered that axis(N) does the right thing without
|
|
needing to be
|
|
given location for tick marks. This allowed simplification of the
|
|
code.
|
|
|
|
- Minor other changes for distribution
|
|
|
|
- Addition of overplot.Rd documentation.
|
|
* [r231] - Integrated my extensions into the R 1.8.0 version of
|
|
heatmap.
|
|
- Add Rd documentation.
|
|
|
|
2003-11-19 warnes
|
|
|
|
* [r228] Remove extranious NULL that confused R CMD check.
|
|
|
|
2003-11-18 warnes
|
|
|
|
* [r226] - Tiny fix to remove R CMD check error.
|
|
* [r225] - Added missing closing brace.
|
|
* [r224] - Convert from MS-Dos to Unix line endings.
|
|
- Reformat to 80 columns.
|
|
|
|
2003-11-10 warnes
|
|
|
|
* [r220] - Add files contributed by Arni Magnusson
|
|
<arnima@u.washington.edu>. As well as some of my own.
|
|
|
|
2003-08-19 warnes
|
|
|
|
* [r219] - Copy of local changes.
|
|
* [r218] - Checkin before re-integrating local changes.
|
|
|
|
2003-06-19 warnes
|
|
|
|
* [r201] - Added enhanced heatmap function.
|
|
|
|
2003-06-09 warnes
|
|
|
|
* [r200] - Add help text for smartlegend.
|
|
* [r199] - New function smartlegend().
|
|
|
|
2003-04-22 warnes
|
|
|
|
* [r191] - Fixeed warning messing caused when 'connect' is a
|
|
vector.
|
|
* [r187] Update from Marc Schwartz, modified by Gregory Warnes:
|
|
|
|
- Modified dim() checks for 'ci.l' and 'ci.u' against 'height'
|
|
to remove R v1.7.0 if() based error msgs for vector conditions.
|
|
|
|
2003-04-04 warnes
|
|
|
|
* [r182] - Change occurences of 'T' to 'TRUE'
|
|
* [r179] - Updated to match changes in textplot function:
|
|
- Added textplot.character
|
|
- Renamed arguments "col.margin" and "row.margin" to "cmar", and
|
|
"rmar" so that specifying "col='red'" is possible.
|
|
- Fixed R CMD check errors
|
|
- Improve comments in example
|
|
- Add textplot.matrix example
|
|
* [r178] - Added textplot.character to handle character strings.
|
|
- Moved test for vector and matrix arguments to textplot.default.
|
|
- Renamed arguments "col.margin" and "row.margin" to "cmar", and
|
|
"rmar" so that specifying "col='red'" is possible.
|
|
|
|
2003-04-02 warnes
|
|
|
|
* [r175] - Added textplot function and friends, as well as
|
|
documentation.
|
|
|
|
2003-03-08 warnes
|
|
|
|
* [r171] - Forgot to update arglist in \usage section.
|
|
* [r169] - Added parameters for rotation of and amount of space
|
|
allocated for
|
|
the row and column labels.
|
|
|
|
2003-03-07 warnes
|
|
|
|
* [r168] - Minor changes to code to allow the package to be
|
|
provided as an
|
|
S-Plus chapter.
|
|
* [r167] - Add 'NULL' as the last element of if statement that
|
|
defines
|
|
lowess.default so that when the file is sourced, S-Plus doesn't
|
|
display the function definition.
|
|
* [r166] - Specify where the defualt lowess function should be
|
|
found.
|
|
- Use getFunction in S-Plus instead of 'get'
|
|
|
|
2003-01-30 warnes
|
|
|
|
* [r159] - Added argument 'add' to allow for the addition of a
|
|
barplot to an
|
|
existing graphic. Default is FALSE
|
|
|
|
2003-01-20 warnes
|
|
|
|
* [r156] - Updated balloonplot help page.
|
|
* [r155] - Updated wapply.R to allow specification of evaluation
|
|
points when
|
|
method is 'width' or 'range' using the 'pts' argument.
|
|
- Updated wapply.Rd to add 'pts' argument
|
|
- Fixed typos, spelling errors, gramatical errors and lack of
|
|
clarity
|
|
in wapply.Rd help text.
|
|
|
|
2003-01-03 warnes
|
|
|
|
* [r154] - Initial checkin of balloonplot functions and
|
|
documentation.
|
|
* [r153] - Added reference to and comparison example of
|
|
sunflowerplot.
|
|
- Added code to put example plots on same plot window using
|
|
par(mfrow=...).
|
|
|
|
2003-01-02 warnes
|
|
|
|
* [r150] - Changed assignment statements that used "=" to "<-" to
|
|
avoid syntax
|
|
errors in older versions of the S language.
|
|
* [r149] - Added wrapper code so that R-specific fiddling won't be
|
|
executed
|
|
under S-Plus.
|
|
* [r147] - Renamed first parameter to match qqnorm generic.
|
|
* [r146] Added additional help text from Kjeitl.
|
|
|
|
2002-12-31 warnes
|
|
|
|
* [r145] Initial checkin of qqnorm.aov function and documentation
|
|
submitted by
|
|
Kjetil Halvorsen <kjetilh@jupiter.umsanet.edu.bo>.
|
|
|
|
2002-11-04 warnes
|
|
|
|
* [r143] Updates from Marc Schwartz:
|
|
|
|
- Updated underlying code to be based upon the new barplot() in R
|
|
v1.6.1
|
|
- This now uses the 'axis.lty' and 'border' arguments
|
|
- In R v1.6.0, R Core introduced a new function called axTicks().
|
|
This is an R equivalent of the C code for CreateAtVector in
|
|
plot.c.
|
|
This now enables me to get the axis tick mark positions
|
|
consistently
|
|
when the 'height' related axis is either linear or log. Thus, I
|
|
can
|
|
now have consistent tick marks and can plot grid lines in either
|
|
situation. If 'plot.grid = TRUE' and 'grid.inc' is specified,
|
|
then
|
|
I still use pretty() to determine the tick marks and lines.
|
|
- This code now depends on R 1.6.0 or later.
|
|
|
|
2002-10-30 warnes
|
|
|
|
* [r139] - Commented out plot.lm() code since recent changes in R
|
|
have broken it.
|
|
|
|
2002-10-11 warnes
|
|
|
|
* [r131] - Fixed log scale errors in legend() call
|
|
|
|
2002-10-01 warnes
|
|
|
|
* [r130] - Added examples of using 'contour' and 'filled.contour'
|
|
for display.
|
|
|
|
2002-09-24 warnes
|
|
|
|
* [r121] - Changed digits=options("digits") which produces a list
|
|
of length 1
|
|
to digits=getOption("digits") which returns a vector of length
|
|
one.
|
|
The former was causing an error when passed to round().
|
|
|
|
2002-09-23 warnes
|
|
|
|
* [r119] - Fixed syntax errors in barplot2.Rd and CrossTable.Rd
|
|
- Fixed incorrect translation of 'F' (distribution) to 'FALSE' in
|
|
glh.test.Rd
|
|
* [r117] - Modified all files to include CVS Id and Log tags.
|
|
* [r116] - Added CrossTable() and barplot2() code and docs
|
|
contributed by Marc Schwartz.
|
|
- Permit combinations() to be used when r>n provided
|
|
repeat.allowed=TRUE
|
|
- Bumped up version number
|
|
|
|
2002-08-01 warnes
|
|
|
|
* [r114] - Corrected documentation mismatch for ci, ci.default.
|
|
|
|
- Replaced all occurences of '_' for assignment with '<-'.
|
|
|
|
- Replaced all occurences of 'T' or 'F' for 'TRUE' and 'FALSE'
|
|
with
|
|
the spelled out version.
|
|
|
|
- Updaded version number and date.
|
|
|
|
2002-04-09 warneg
|
|
|
|
* [r109] Checkin for version 0.5.3
|
|
|
|
2002-03-27 warneg
|
|
|
|
* [r107] Added "..." argument to lowess.default.
|
|
* [r106] - Added code to append "..." to the argument list of
|
|
lowess.default.
|
|
|
|
- Fixed a wrong default for f in lowess.formula. Was 3, but
|
|
should
|
|
have been 2/3.
|
|
|
|
2002-03-26 warneg
|
|
|
|
* [r104] - Changed methods to include '...' to match the generic.
|
|
- Updated for version 0.5.1
|
|
* [r100] Initial checkin.
|
|
|
|
2002-03-20 warneg
|
|
|
|
* [r94] - Changes to add compatibility with S-Plus 2000
|
|
* [r93] - Changes to add compatibility with S-Plus 2000.
|
|
* [r92] - Updated to work in S-Plus 2000 as well as R.
|
|
|
|
2002-03-05 warneg
|
|
|
|
* [r88] - Replace "T" with "TRUE". Problems arrive when there is a
|
|
variable named "T".
|
|
|
|
2002-02-20 warneg
|
|
|
|
* [r81] Minor changes, typo and formatting fixes.
|
|
* [r80] - Generalized to allow specification of the multiples of
|
|
the standard deviation levels to be plotted (0=mean, 1=1 sd, ..).
|
|
- Now (invisibly) returnes computed smooths.
|
|
|
|
2002-02-16 warneg
|
|
|
|
* [r78] Added bandplot documentation.
|
|
* [r77] - Fixed Bug: When method=="range", the absolute range of x
|
|
was being
|
|
used to compute the relative width instead of the (correct)
|
|
relative
|
|
range.
|
|
* [r76] - Corrected problem removing missing values: The missing
|
|
values of $x
|
|
and $y were being removed indepdendently, leaving an uneven
|
|
number
|
|
of points in the result.
|
|
|
|
2002-02-04 warneg
|
|
|
|
* [r74] - Add na.rm parameter and make the default TRUE.
|
|
* [r73] Initial checkin.
|
|
* [r72] - When err="x", 'col' was being used to plot bars, rather
|
|
than 'barcol'.
|
|
* [r71] - fixed typo, when err="x", lty was 'slty' causing an
|
|
error.
|
|
|
|
2001-12-12 warneg
|
|
|
|
* [r54] - Quoted underscore character in my email address.
|
|
- Added correct keyword.
|
|
* [r52] Added documentation for xaxt parameter.
|
|
* [r51] Updated to explicitly list control arguments to
|
|
lowess.formula.
|
|
* [r50] Initial checkin. Code copied from R source package and
|
|
extended.
|
|
|
|
2001-12-07 warneg
|
|
|
|
* [r46] Fixed an problem where \code was incorrectly delimited by
|
|
parens
|
|
rather than curly brackets.
|
|
* [r42] Initial checkin.
|
|
* [r41] - Added cvs tags.
|
|
* [r40] - Leave first point at center, rather than shifting by s/2
|
|
to the left. This looks better when there are more than 2
|
|
'spaced' points.
|
|
|
|
2001-12-05 warneg
|
|
|
|
* [r33] - Added ability to use the t-distribution to compute
|
|
confidence
|
|
intervals. This is controlled using the 'use.t' parameter.
|
|
* [r31] - Added documentation of use.t parameter.
|
|
* [r30] - Clarified how the width of the window is computed when
|
|
method="nobs".
|
|
* [r29] - Added a better default for "width" when method="nobs".
|
|
For this case,
|
|
width=max(5, length(x)/10).
|
|
|
|
- Allow omission of x values which result in missing y values via
|
|
'drop.na' parameter.
|
|
|
|
2001-10-26 warneg
|
|
|
|
* [r28] Added correct handling of 'xaxt="n"'.
|
|
|
|
2001-10-16 warneg
|
|
|
|
* [r27] Fixed unbalanced brace.
|
|
* [r26] Added minbar and maxbar parameters.
|
|
* [r25] Forgot to add minbar and maxbar to usage section.
|
|
* [r24] Added description of minbar and maxbar.
|
|
* [r23] - Added minbar and maxbar parameters
|
|
- Added cvs id and log tags to header
|
|
* [r22] Added cvs id and log tag to file header
|
|
* [r21] Added minbar and maxbar parameters.
|
|
* [r20] Added description of minsd parameter.
|
|
* [r19] Added minsd parameter.
|
|
|
|
2001-09-18 warneg
|
|
|
|
* [r18] Release 0.3.2
|
|
|
|
2001-09-01 warneg
|
|
|
|
* [r16] Release 0.3.0
|
|
|
|
2001-08-31 warneg
|
|
|
|
* [r15] Used wrong character in header (% instead of #). Fixed.
|
|
* [r14] Used wrong comment character (% instead of #) in header.
|
|
Fixed.
|
|
|
|
2001-08-25 warneg
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* [r10] Initial checkin.
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* [r9] Added CVS header.
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* [r8] Initial Checkin
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2001-05-30 warneg
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* [r2] Initial revision
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