Merge pull request #152 from griffithlab/add_scripts

add variants.sh script
griffithlab · Oct 12, 2021 · d79a9b7 · d79a9b7
2 parents 630dcf5 + 92f25c5
commit d79a9b7
Showing 1 changed file with 10 additions and 0 deletions.
diff --git a/scripts/variants.sh b/scripts/variants.sh
@@ -0,0 +1,10 @@
+#!/bin/bash
+# usage: 
+# 	bash variants.sh <input.tsv> <output.bed>
+awk 'NR>1 {print $17}' $1  > $2
+sed -ie 's/[,]/\n/g' $2
+sed -ie 's/[:\-]/\t/g' $2
+sort $2 | uniq > ${2}.tmp 
+cat ${2}.tmp > $2
+rm -f ${2}.tmp
+rm ${2}e