Workflow: create_snap_and_analyze.cwl
Fetched 2024-11-27 02:56:23 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:
MIT License
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| threads | Integer (Optional) | ||
| promoters | File (Optional) | ||
| gene_track | File (Optional) | ||
| size_index | File (Optional) | ||
| tmp_folder | String (Optional) | ||
| genome_name | String (Optional) | ||
| bin_size_list | Integer[] (Optional) | ||
| blacklist_bed | File (Optional) | ||
| alignment_index | File (Optional) | ||
| gene_annotation | File (Optional) | ||
| encode_blacklist | File (Optional) | ||
| preferred_barcodes | File (Optional) | ||
| sequence_directory | Directory | ||
| reference_genome_fasta | File (Optional) |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| create_and_analyze_snap_file |
steps/snaptools_create_snap_file.cwl
(Workflow)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| bam_file | File[] | ||
| snap_file | File[] | ||
| report_files | 127f312a83fd38007552a09938f3bc1e[] | ||
| snap_qc_file | File[] | ||
| zipped_files | 162a871719b283325d503126c706d075[] | ||
| fragment_file | File[] | ||
| motif_CSV_files | 4a009111676e05682fd241fd0598c657[] | ||
| motif_RData_file | File[] | ||
| analysis_BED_files | 420c41d4efa2219f14ad8b34659c1d18[] | ||
| analysis_CSV_files | 8099d02ece6a3c4b7255a3e7c238bd31[] | ||
| analysis_MTX_files | 61d460024549b2b58cc3d9cd42cdfabe[] | ||
| analysis_PDF_files | 04e0871a85a39baef57e938c95dc5402[] | ||
| analysis_TXT_files | 3e516c3bd646aafe22b0b4f6d2f200ee[] | ||
| alignment_qc_report | File[] | ||
| analysis_HDF5_files | 913261aca541da3ea320c7aa89268073[] | ||
| analysis_RDS_objects | 249c3d8032697c0f1062d3e7a5f7cdad[] |
Permalink:
https://w3id.org/cwl/view/git/bb023f95ca3330128bfef41cc719ffcb2ee6a190/create_snap_and_analyze.cwl
