Workflow: encode_mapping_workflow.cwl
Fetched 2023-01-09 06:12:29 GMT
Verified with cwltool version 3.1.20221201130942
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
This workflow is Open Source and may be reused according to the terms of:
MIT License
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| fastqs | File[] | ||
| reference | File | ||
| trimming_parameter | String |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| xcor |
xcor.cwl
(CommandLineTool)
|
||
| mapper |
mapping.cwl
(CommandLineTool)
|
||
| filter_qc |
filter_qc.cwl
(CommandLineTool)
|
||
| output_folder |
mount_folder.cwl
(ExpressionTool)
|
||
| post_processing |
post_processing.cwl
(CommandLineTool)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| cc | File | ||
| cc_pdf | File | ||
| dup_qc | File | ||
| pbc_qc | File | ||
| xcor_log | File | ||
| tag_align | File[] | ||
| xcor_json | File | ||
| output_dir | Directory | ||
| filter_json | File | ||
| mapping_log | File | ||
| filtered_bam | File | ||
| mapping_json | File | ||
| filter_qc_log | File | ||
| unfiltered_bam | File | ||
| post_mapping_log | File | ||
| filtered_flagstat | File | ||
| post_mapping_json | File | ||
| unfiltered_flagstat | File |
Permalink:
https://w3id.org/cwl/view/git/14405c3dd8d18f845b16b0e9872c7f3bf9b04736/local-workflows/encode_mapping_workflow.cwl
