aboutsummaryrefslogtreecommitdiff
path: root/workflows
diff options
context:
space:
mode:
Diffstat (limited to 'workflows')
-rw-r--r--workflows/fastq2fasta/bcftools-consensus.cwl2
-rw-r--r--workflows/fastq2fasta/bcftools-view-qc.cwl2
2 files changed, 2 insertions, 2 deletions
diff --git a/workflows/fastq2fasta/bcftools-consensus.cwl b/workflows/fastq2fasta/bcftools-consensus.cwl
index dffdbe3..4704e79 100644
--- a/workflows/fastq2fasta/bcftools-consensus.cwl
+++ b/workflows/fastq2fasta/bcftools-consensus.cwl
@@ -9,7 +9,7 @@ baseCommand: bcftools
arguments:
- consensus
- -i
- - 'QUAL > 1 && GT="a"'
+ - 'QUAL > 10 && GT="a"'
- -Hla
- -f
- $(inputs.ref_fasta)
diff --git a/workflows/fastq2fasta/bcftools-view-qc.cwl b/workflows/fastq2fasta/bcftools-view-qc.cwl
index 336f455..37caa19 100644
--- a/workflows/fastq2fasta/bcftools-view-qc.cwl
+++ b/workflows/fastq2fasta/bcftools-view-qc.cwl
@@ -8,7 +8,7 @@ baseCommand: bcftools
arguments:
- view
- -i
- - 'QUAL > 1 && GT="a"'
+ - 'QUAL > 10 && GT="a"'
- -Oz
- --threads=$(inputs.threads)
- $(inputs.bcf)