Workflow: snapanalysis_setup_and_analyze.cwl
Fetched 2023-01-03 22:32:53 GMT
Verified with cwltool version 3.1.20221201130942
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- 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 |
|---|---|---|---|
| processes | Integer (Optional) | ||
| promoters | File (Optional) | ||
| gene_track | File (Optional) | ||
| input_snap | File | ||
| gene_annotation | File (Optional) | ||
| encode_blacklist | File (Optional) | ||
| preferred_barcodes | File (Optional) |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| convert_to_h5ad |
convert_to_h5ad.cwl
(CommandLineTool)
|
Assay-specific adjustment of cell barcodes |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| peaks_bed_file | File | ||
| motif_CSV_files | File[] | ||
| umap_coords_csv | File | ||
| cell_by_bin_h5ad | File | ||
| motif_RData_file | File | ||
| cell_by_gene_h5ad | File | ||
| analysis_CSV_files | File[] | ||
| analysis_PDF_files | File[] | ||
| analysis_RDS_objects | File[] |
Permalink:
https://w3id.org/cwl/view/git/e1af1eb62aa9f757bded9b995411d25e098b3572/steps/snapanalysis_setup_and_analyze.cwl
