109 lines
2.1 KiB
Plaintext
109 lines
2.1 KiB
Plaintext
<%@include file="includes/setup.md.rsp"%>
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<%@string colname="colMads"%>
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<%@string rowname="rowMads"%>
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<%@meta title="${colname}() and ${rowname}() benchmarks"%>
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<%@meta author="Henrik Bengtsson"%>
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<%@meta date="2014-11-18"%>
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<%@include file="${header}"%>
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# <%@meta name="title"%>
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This report benchmark the performance of <%=colname%>() and <%=rowname%>() against alternative methods.
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## Alternative methods
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* apply() + mad()
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* colMads2() and rowMads2()
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where `rowMads2()` and `colMads2()` are:
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```r
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<%=withCapture({
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rowMads2 <- function(x, const = 1.4826, na.rm = FALSE) {
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mu <- rowMedians(x, na.rm = na.rm)
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x <- abs(x - mu)
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mad <- rowMedians(x, na.rm = FALSE)
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const * mad
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}
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colMads2 <- function(x, const = 1.4826, na.rm = FALSE) {
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mu <- colMedians(x, na.rm = na.rm)
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x <- abs(x - mu)
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mad <- colMedians(x, na.rm = FALSE)
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const * mad
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}
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})%>
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```
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<%
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rowMads_R <- function(x, na.rm = FALSE) {
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apply(x, MARGIN = 1L, FUN = mad, na.rm = na.rm)
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}
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colMads_R <- function(x, na.rm = FALSE) {
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apply(x, MARGIN = 2L, FUN = mad, na.rm = na.rm)
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}
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%>
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<% for (mode in c("integer", "double")) { %>
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## Data type "<%=mode%>"
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### Data
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```r
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<%=withCapture({
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<%@include file="R/random-matrices.R"%>
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data <- rmatrices(mode = mode)
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})%>
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```
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### Results
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<% for (dataLabel in names(data)) { %>
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<% mprintf("%s: %s\n", mode, dataLabel) %>
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#### <%=dataLabel%> <%=mode%> matrix
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```r
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<%=withCapture({
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X <- data[[.dataLabel.]]
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gc()
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colStats <- microbenchmark(
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colMads = colMads(X, na.rm = FALSE),
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colMads2 = colMads2(X, na.rm = FALSE),
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"apply+mad" = apply(X, MARGIN = 2L, FUN = mad, na.rm = FALSE),
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unit = "ms"
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)
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X <- t(X)
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gc()
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rowStats <- microbenchmark(
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rowMads = rowMads(X, na.rm = FALSE),
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rowMads2 = rowMads2(X, na.rm = FALSE),
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"apply+mad" = apply(X, MARGIN = 1L, FUN = mad, na.rm = FALSE),
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unit = "ms"
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)
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})%>
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```
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<% crBenchmarkResults(colStats, rowStats, tags=c(mode, dataLabel)) %>
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<% } # for (dataLabel ...) %>
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<% } # for (mode ...) %>
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<%@include file="${footer}"%>
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<%---------------------------------------------------------------------------
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HISTORY:
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2014-11-17
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o Created.
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---------------------------------------------------------------------------%>
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