- 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 |
---|---|---|---|
bam | File | ||
fasta | File | ||
job_uuid | String | ||
known_snp | File | ||
input_state | String | ||
thread_count | Long |
Steps
ID | Runs | Label | Doc |
---|---|---|---|
merge_sqlite |
../../tools/merge_sqlite.cwl
(CommandLineTool)
|
||
samtools_stats |
../../tools/samtools_stats.cwl
(CommandLineTool)
|
||
samtools_flagstat |
../../tools/samtools_flagstat.cwl
(CommandLineTool)
|
||
samtools_idxstats |
../../tools/samtools_idxstats.cwl
(CommandLineTool)
|
||
picard_collectwgsmetrics |
../../tools/picard_collectwgsmetrics.cwl
(CommandLineTool)
|
||
samtools_stats_to_sqlite |
../../tools/samtools_stats_to_sqlite.cwl
(CommandLineTool)
|
||
picard_collectoxogmetrics |
../../tools/picard_collectoxogmetrics.cwl
(CommandLineTool)
|
||
samtools_flagstat_to_sqlite |
../../tools/samtools_flagstat_to_sqlite.cwl
(CommandLineTool)
|
||
samtools_idxstats_to_sqlite |
../../tools/samtools_idxstats_to_sqlite.cwl
(CommandLineTool)
|
||
picard_collectmultiplemetrics |
../../tools/picard_collectmultiplemetrics.cwl
(CommandLineTool)
|
||
picard_collectwgsmetrics_to_sqlite |
../../tools/picard_collectwgsmetrics_to_sqlite.cwl
(CommandLineTool)
|
||
picard_collectoxogmetrics_to_sqlite |
../../tools/picard_collectoxogmetrics_to_sqlite.cwl
(CommandLineTool)
|
||
picard_collectmultiplemetrics_to_sqlite |
../../tools/picard_collectmultiplemetrics_to_sqlite.cwl
(CommandLineTool)
|
Outputs
ID | Type | Label | Doc |
---|---|---|---|
merge_sqlite_destination_sqlite | File |
Permalink:
https://w3id.org/cwl/view/git/58af8583ab04b8836777745a2116a2e79f9b441b/workflows/dnaseq/mixed_library_metrics.cwl