Mercurial > repos > iuc > deseq2

diff get_deseq_dataset.R @ 42:6ef2cba4e35a draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/deseq2 commit 6868b66f73ddbe947986d1a20b546873cbd515a9
author iuc
date Fri, 26 Aug 2022 11:15:32 +0000
parents 951876579237
children 1cb33de18af5
line wrap: on
line diff
--- a/get_deseq_dataset.R	Mon Nov 29 18:16:10 2021 +0000
+++ b/get_deseq_dataset.R	Fri Aug 26 11:15:32 2022 +0000
@@ -14,7 +14,7 @@
     }
   }
 
-  if (!use_txi & has_header) {
+  if (!use_txi && has_header) {
       countfiles <- lapply(as.character(sample_table$filename), read.delim, row.names = 1)
       tbl <- do.call("cbind", countfiles)
       colnames(tbl) <- rownames(sample_table) # take sample ids from header
@@ -35,7 +35,7 @@
         colData = subset(sample_table, select = -filename),
         design = design_formula
       )
-  } else if (!use_txi & !has_header) {
+  } else if (!use_txi && !has_header) {
 
     # construct the object from HTSeq files
     dds <- DESeqDataSetFromHTSeqCount(