Update README.md

FredHutch · Aug 10, 2019 · aa21fb8 · aa21fb8
1 parent e6b7b4f
commit aa21fb8
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/README.md b/README.md
@@ -44,8 +44,8 @@ Here is some example code for converting from a paired-end BAM to a fragment bed
 
 	bedtools bamtobed -bedpe -i $sample.bam > $sample.bed
 	awk '$1==$4 && $6-$2 < 1000 {print $0}' $sample.bed > $sample.clean.bed
-	cut -f 1,2,6 $sample.clean.bed > $fragments.bed
-	bedtools genomecov -i $fragments.bed -g my.genome > $fragments.bedgraph
+	cut -f 1,2,6 $sample.clean.bed > $sample.fragments.bed
+	bedtools genomecov -i $sample.fragments.bed -g my.genome > $sample.fragments.bedgraph
 
 ## Output file: