- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
This workflow is Open Source and may be reused according to the terms of:
Apache License 2.0
Note that the tools invoked by the workflow may have separate licenses.
Inputs
ID | Type | Title | Doc |
---|---|---|---|
bams | File[] | ||
dbsnp | File | ||
mills | File | ||
omni_vcf | File | ||
reference | String | ||
readgroups | String[] | ||
known_indels | File | ||
bait_intervals | File | ||
target_intervals | File |
Steps
ID | Runs | Label | Doc |
---|---|---|---|
qc | Exome QC workflow | ||
alignment |
exome_alignment_packed.cwl#workflow.cwl_2
(Workflow)
|
Unaligned BAM to BQSR and VCF |
Outputs
ID | Type | Label | Doc |
---|---|---|---|
cram | File | ||
flagstats | File | ||
hs_metrics | File | ||
insert_size_metrics | File | ||
verify_bam_id_depth | File | ||
verify_bam_id_metrics | File | ||
alignment_summary_metrics | File | ||
per_target_coverage_metrics | File |
Permalink:
https://w3id.org/cwl/view/git/0ae2468ab2ba0b9a196c2aa89b580555750bf0f6/workflows/hello/exome_alignment_packed.cwl?part=main