Mercurial > repos > artbio > snvtocnv

diff segmentation_sequenza.R @ 1:d2833cfb3f08 draft

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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/snvtocnv commit aa1b68e64cbbdcdd9167134ec2ea61a151333688
author artbio
date Thu, 19 May 2022 20:35:24 +0000
parents b77d7a0a45e8
children
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--- a/segmentation_sequenza.R	Sun Mar 07 23:19:59 2021 +0000
+++ b/segmentation_sequenza.R	Thu May 19 20:35:24 2022 +0000
@@ -40,9 +40,9 @@
 ## Processing seqz files : normalisation and segmentation for chromosomes 1 to 22
 message(sprintf("\nExtraction step for %s", data_file))
 
-chrom_list <- c("chr1", "chr2", "chr3", "chr4", "chr5", "chr6", "chr7", "chr8", "chr9",
-               "chr10", "chr11", "chr12", "chr13", "chr14", "chr15", "chr16", "chr17",
-               "chr18", "chr19", "chr20", "chr21", "chr22")
+  chrom_list <- c("chr1", "chr2", "chr3", "chr4", "chr5", "chr6", "chr7", "chr8", "chr9",
+                "chr10", "chr11", "chr12", "chr13", "chr14", "chr15", "chr16", "chr17",
+                "chr18", "chr19", "chr20", "chr21", "chr22", "chrX")
 
 Sys.setenv(TZDIR = "/usr/share/zoneinfo/")
 Sys.setenv(TZ = "US/Eastern")