diff options
Diffstat (limited to 'workflows/fastq2fasta')
| -rw-r--r-- | workflows/fastq2fasta/bcftools-consensus.cwl | 2 | ||||
| -rw-r--r-- | workflows/fastq2fasta/bcftools-view-qc.cwl | 2 |
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) |