Mercurial > repos > lecorguille > xcms_merge
diff lib.r @ 5:7bb43bf0b546 draft
planemo upload for repository https://github.com/workflow4metabolomics/xcms commit e3956bf3393be5bff67b4d90f1007da00b0ec9b2-dirty
| author | lecorguille |
|---|---|
| date | Thu, 04 Oct 2018 10:36:22 -0400 |
| parents | f439ed7a8f03 |
| children | a9d451591d7b |
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--- a/lib.r Wed Sep 19 02:53:07 2018 -0400 +++ b/lib.r Thu Oct 04 10:36:22 2018 -0400 @@ -186,9 +186,9 @@ #@author G. Le Corguille # value: intensity values to be used into, maxo or intb -getPeaklistW4M <- function(xdata, intval="into", convertRTMinute=F, numDigitsMZ=4, numDigitsRT=0, naTOzero=T, variableMetadataOutput, dataMatrixOutput) { +getPeaklistW4M <- function(xdata, intval="into", convertRTMinute=F, numDigitsMZ=4, numDigitsRT=0, naTOzero=T, variableMetadataOutput, dataMatrixOutput, sampleNamesList) { dataMatrix <- featureValues(xdata, method="medret", value=intval) - colnames(dataMatrix) <- tools::file_path_sans_ext(colnames(dataMatrix)) + colnames(dataMatrix) <- make.names(tools::file_path_sans_ext(colnames(dataMatrix))) dataMatrix = cbind(name=groupnamesW4M(xdata), dataMatrix) variableMetadata <- featureDefinitions(xdata) colnames(variableMetadata)[1] = "mz"; colnames(variableMetadata)[4] = "rt"