Workflow: rMATS_bam_packed.cwl
Fetched 2026-02-19 14:10:05 GMT
Verified with cwltool version 3.1.20230201224320
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
This workflow is Open Source and may be reused according to the terms of:
https://raw.githubusercontent.com/Xinglab/rmats-turbo/d3e2adaa0521bec1cd6adfdfb1c9d7c3e848f816/LICENSE
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| wf_gtf | File | ||
| wf_mel | Integer (Optional) | ||
| wf_mil | Integer (Optional) | ||
| wf_cstat | String (Optional) | ||
| wf_tstat | Integer (Optional) | ||
| wf_bam_g1 | File[] | ||
| wf_bam_g2 | File[] (Optional) | ||
| wf_novelSS | Boolean (Optional) | ||
| wf_nthread | Integer (Optional) | ||
| wf_out_dir | String | ||
| wf_statoff | Boolean (Optional) | ||
| wf_lib_type | String (Optional) | ||
| wf_readLength | Integer | ||
| wf_darts_model | Boolean (Optional) | ||
| wf_anchorLength | Integer (Optional) | ||
| wf_darts_cutoff | String (Optional) | ||
| wf_paired_stats | Boolean (Optional) | ||
| wf_disk_space_gb | Integer (Optional) | ||
| wf_is_single_end | Boolean (Optional) | ||
| wf_allow_clipping | Boolean (Optional) | ||
| wf_machine_mem_gb | Integer (Optional) | ||
| wf_individual_counts | Boolean (Optional) | ||
| wf_variable_read_length | Boolean (Optional) |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| step_post |
4879ca0b8ed0efdec6ba21bd6d9ba990
(CommandLineTool)
|
||
| step_prep_g1 |
dc09be5e0e3ed1e685a9de2da511416b
(CommandLineTool)
|
||
| step_prep_g2 |
efae162cdacb7e0006c9b78f96d468b4
(CommandLineTool)
|
||
| step_exp_prep_g1 |
076e06dbbbf59886a81326204d899df7
(ExpressionTool)
|
||
| step_exp_prep_g2 |
23c020f835c73c39150d5357de64a752
(ExpressionTool)
|
||
| step_exp_read_outcome |
1b4703eff5b06d9c7f20c514645102ca
(ExpressionTool)
|
||
| step_exp_file_to_loc_g1 |
1e1f5c10ca0500abfdbec6488753a68d
(ExpressionTool)
|
||
| step_exp_file_to_loc_g2 |
02028d6fffd61d0cbb092cbb1fba2476
(ExpressionTool)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| wf_out_tar | File | ||
| wf_read_outcomes | File[] |
Permalink:
https://w3id.org/cwl/view/git/d3e2adaa0521bec1cd6adfdfb1c9d7c3e848f816/cwl/rMATS_bam_packed.cwl
