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comparison template_script_DESeq2_CL.r @ 4:05c9b1a7f44e draft default tip

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Uploaded new release 1.7.3
author lgueguen
date Thu, 07 Jan 2021 11:12:01 +0000
parents de6d0b7c17af
children
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3:de6d0b7c17af 4:05c9b1a7f44e
182 182
183 # save image of the R session 183 # save image of the R session
184 save.image(file=paste0(projectName, ".RData")) 184 save.image(file=paste0(projectName, ".RData"))
185 185
186 # generating HTML report 186 # generating HTML report
187 Sys.setenv(HOME = getwd())
187 writeReport.DESeq2(target=target, counts=counts, out.DESeq2=out.DESeq2, summaryResults=summaryResults, 188 writeReport.DESeq2(target=target, counts=counts, out.DESeq2=out.DESeq2, summaryResults=summaryResults,
188 majSequences=majSequences, workDir=workDir, projectName=projectName, author=author, 189 majSequences=majSequences, workDir=workDir, projectName=projectName, author=author,
189 targetFile=targetFile, rawDir=rawDir, featuresToRemove=featuresToRemove, varInt=varInt, 190 targetFile=targetFile, rawDir=rawDir, featuresToRemove=featuresToRemove, varInt=varInt,
190 condRef=condRef, batch=batch, fitType=fitType, cooksCutoff=cooksCutoff, 191 condRef=condRef, batch=batch, fitType=fitType, cooksCutoff=cooksCutoff,
191 independentFiltering=independentFiltering, alpha=alpha, pAdjustMethod=pAdjustMethod, 192 independentFiltering=independentFiltering, alpha=alpha, pAdjustMethod=pAdjustMethod,