Workflow: rMATS_bam_packed.cwl
Fetched 2024-08-27 14:46:23 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/kutscherae-dockstore/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[] | ||
| 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 |
rMATS_bam_packed.cwl#step_post/3c2d304a-5c59-46d5-b4a4-4c1d14f834eb
(CommandLineTool)
|
||
| step_prep_g1 |
rMATS_bam_packed.cwl#step_prep_g1/e4218cdf-640f-49a2-8716-6102893791b1
(CommandLineTool)
|
||
| step_prep_g2 |
rMATS_bam_packed.cwl#step_prep_g2/c6b9d8d7-9d80-431d-9563-9c4dc8e00fb6
(CommandLineTool)
|
||
| step_exp_prep_g1 |
rMATS_bam_packed.cwl#step_exp_prep_g1/7d77a192-4e4b-4648-9bf7-903fea351f75
(ExpressionTool)
|
||
| step_exp_prep_g2 |
rMATS_bam_packed.cwl#step_exp_prep_g2/ae0cb231-4728-4724-bbf3-9dd4e55496a2
(ExpressionTool)
|
||
| step_exp_read_outcome |
rMATS_bam_packed.cwl#step_exp_read_outcome/2a316576-bcb5-4cbc-b729-d47277d226b9
(ExpressionTool)
|
||
| step_exp_file_to_loc_g1 |
rMATS_bam_packed.cwl#step_exp_file_to_loc_g1/ff9b48a6-0d76-48f2-a364-dfa6bd948f95
(ExpressionTool)
|
||
| step_exp_file_to_loc_g2 |
rMATS_bam_packed.cwl#step_exp_file_to_loc_g2/6c66af22-f4a6-409d-b50d-393e743e1e88
(ExpressionTool)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| wf_out_tar | File | ||
| wf_read_outcomes | File[] |
Permalink:
https://w3id.org/cwl/view/git/2b37b8cdb00c1c42ece6196c4188fc4b7ce7b1aa/cwl/rMATS_bam_packed.cwl
