git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/crlmm@39998 bc3139a8-67e5-0310-9ffc-ced21a209358
Benilton Carvalho authored on 08/06/2009 14:49:43
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@@ -155,3 +155,7 @@ is decoded and scanned |
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2009-05-07 Matt Ritchie - committed version 1.3.2 |
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* Updated usage of sampleNames() on NChannelSet objects in Illumina functions to maintain consistency with Biobase |
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+ |
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+2009-06-08 B Carvalho - committed version 1.3.3 |
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+ |
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+* Added batchQC to phenoData |
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@@ -1,7 +1,7 @@ |
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Package: crlmm |
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Type: Package |
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Title: Genotype Calling (CRLMM) and Copy Number Analysis tool for Affymetrix SNP 5.0 and 6.0 and Illumina arrays. |
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-Version: 1.3.2 |
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+Version: 1.3.3 |
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Date: 2008-12-30 |
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Author: Rafael A Irizarry, Benilton S Carvalho <bcarvalh@jhsph.edu>, Robert Scharpf <rscharpf@jhsph.edu>, Matt Ritchie <mritchie@wehi.EDU.AU> |
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Maintainer: Benilton S Carvalho <bcarvalh@jhsph.edu>, Robert Scharpf <rscharpf@jhsph.edu>, Matt Ritchie <mritchie@wehi.EDU.AU> |
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@@ -45,10 +45,13 @@ getVarInEnv <- function(dataset, environ=.crlmmPkgEnv){
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list2SnpSet <- function(x, returnParams=FALSE){
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pd <- data.frame(SNR=x[["SNR"]], gender=x[["gender"]], |
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+ batchQC=rep(x[["batchQC"]], length(ncol(x[["calls"]]))), |
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row.names=colnames(x[["calls"]])) |
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pdv <- data.frame(labelDescription=c("Signal-to-noise Ratio",
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- "Gender: Male (1) and Female (2)"), |
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- row.names=c("SNR", "gender"))
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+ "Gender: Male (1) and Female (2)", |
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+ "Quality score for batch"), |
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+ row.names=c("SNR", "gender", "batchQC"))
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+ |
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recall <- length(x[["DD"]]) > 1 |
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if (returnParams){
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if (recall){
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