fix: primer clipping add up- and downstream (#515)

IKIM-Essen · Mar 24, 2022 · 5c886fa · 5c886fa
1 parent 91b5ac5
commit 5c886fa
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/workflow/rules/read_clipping.smk b/workflow/rules/read_clipping.smk
@@ -57,7 +57,7 @@ rule bamclipper:
         "(cp {input.bam} {params.output_dir} &&"
         " cp {input.bai} {params.output_dir} &&"
         " cd {params.output_dir} &&"
-        " bamclipper.sh -b {params.bam} -p {params.bed_path} -n {threads}) "
+        " bamclipper.sh -b {params.bam} -p {params.bed_path} -n {threads} -u 5 -d 5) "
         " > {params.cwd}/{log} 2>&1"