Combine the cytoFrames within a cytoSet according to some grouping factor

Description

Combine the cytoFrames within a cytoSet according to some grouping factor.

Usage

combineFrames(x, by)

Arguments

Value

cytoSet.

Author(s)

Wolfgang Huber <huber@ebi.ac.uk>

Examples

cset <- readCytoSet(path=system.file("extdata", package="prada"),
                 pattern="[A-Z][0-9][0-9]$")
nr1 <- csApply(cset, nrow)
sm1 <- csApply(cset, sum)

fac <- factor(c(1,1,2,2,2,2))
cc  <- combineFrames(cset, fac)
nr2 <- csApply(cc, nrow)
sm2 <- csApply(cc, sum)

stopifnot(all(nr2==tapply(nr1, fac, sum)))
stopifnot(all(sm2==tapply(sm1, fac, sum)))

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
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Platform: x86_64-pc-linux-gnu (64-bit)

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> library(prada)
Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
    get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply,
    match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
    rbind, rownames, sapply, setdiff, sort, table, tapply, union,
    unique, unsplit

Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: RColorBrewer
Loading required package: grid
Loading required package: rrcov
Loading required package: robustbase

Attaching package: 'robustbase'

The following object is masked from 'package:Biobase':

    rowMedians

Scalable Robust Estimators with High Breakdown Point (version 1.3-11)

> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/prada/combineFrames.Rd_%03d_medium.png", width=480, height=480)
> ### Name: combineFrames
> ### Title: Combine the cytoFrames within a cytoSet according to some
> ###   grouping factor
> ### Aliases: combineFrames
> 
> ### ** Examples
> 
> cset <- readCytoSet(path=system.file("extdata", package="prada"),
+                  pattern="[A-Z][0-9][0-9]$")
> nr1 <- csApply(cset, nrow)
> sm1 <- csApply(cset, sum)
> 
> fac <- factor(c(1,1,2,2,2,2))
> cc  <- combineFrames(cset, fac)
> nr2 <- csApply(cc, nrow)
> sm2 <- csApply(cc, sum)
> 
> stopifnot(all(nr2==tapply(nr1, fac, sum)))
> stopifnot(all(sm2==tapply(sm1, fac, sum)))
> 
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>