* mymac:
add AffyGW.pdf
update vignettes in inst/scripts
Change argument of validCEL to celfiles
Update constructInf to accommodate GenomeDataFrame class for featureData
bump version to 1.13.7
Add doRUnit.R
Add celfile-utils.Rd
Streamlne some of the Rd files
add validCEL function that checks whether all celfiles can be read
getFeatureData returns GenomeAnnotatedDataFrame
Remove imports from methods. Remove pdf of illumina_copynumber.pdf (large file) and copynumber.pdf
getFeatureDAta returns GenomeAnnotatedDataFrame
Remove separate vignette for copy number in inst/scripts. Include copynumber section in both affy and illumina pipelines.
update documentation files for genotype.Illumina, preprocessInf, and genotypeInf (cdfName added as argument. Indicate that 'batch' should be a character string)
pass cdfName to genotypeInf and preprocessInf
add unitTests and cn-functions for 'simple usage'
Combine AffyPreprocess and copynumber. Combine IlluminaPreprocess and copynumber
remove depency on ff to allow installation on my mac
git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/crlmm@62108 bc3139a8-67e5-0310-9ffc-ced21a209358
Rob Scharp authored on 17/01/2012 19:13:44
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-\name{celDates}
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-\alias{celDates}
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-\title{Extract dates from the cel file header}
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-\description{
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- Extract dates from the cel file header. |
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-} |
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-\usage{
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-celDates(celfiles) |
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-} |
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-\arguments{
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- \item{celfiles}{CEL file names. Must specify the complete path.}
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-} |
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-\value{
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- date-time class POSIXt |
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-} |
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-\author{R. Scharpf}
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-\seealso{ \cite{\link[affyio]{read.celfile.header}}, \cite{\link{POSIXt}}}
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-\keyword{manip}
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- |
git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/crlmm@38183 bc3139a8-67e5-0310-9ffc-ced21a209358
Rob Scharp authored on 25/03/2009 13:12:49
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+\name{celDates}
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+\alias{celDates}
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+\title{Extract dates from the cel file header}
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+\description{
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+ Extract dates from the cel file header. |
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+} |
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+\usage{
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+celDates(celfiles) |
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+} |
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+\arguments{
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+ \item{celfiles}{CEL file names. Must specify the complete path.}
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+} |
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+\value{
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+ date-time class POSIXt |
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+} |
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+\author{R. Scharpf}
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+\seealso{ \cite{\link[affyio]{read.celfile.header}}, \cite{\link{POSIXt}}}
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+\keyword{manip}
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+ |