subworkflows_pindel_region.cwl
Travis CI User edited this page Feb 24, 2021
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Run pindel on provided region
| Name | Label | Description | Type | Secondary Files |
|---|---|---|---|---|
| reference | string | |||
| tumor_bam | File | ['^.bai'] | ||
| normal_bam | File | ['^.bai'] | ||
| region_file | File | |||
| insert_size | int | |||
| ref_name | string? | |||
| output_name | string? | |||
| tumor_sample_name | string | |||
| normal_sample_name | string |
| Name | Label | Description | Type | Secondary Files |
|---|---|---|---|---|
| pindel_region_vcf | File | ['.tbi'] |
| Name | CWL Run |
|---|---|
| pindel_region | tools/pindel.cwl |
| cat | tools/cat_out.cwl |
| pindel2vcf | tools/pindel2vcf.cwl |
| fix_vcf_header | tools/fix_vcf_header.cwl |
| remove_end_tags | tools/remove_end_tags.cwl |
| index | tools/index_vcf.cwl |