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tools_cellranger_count.cwl
Travis CI User edited this page Feb 4, 2020
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Run Cell Ranger Count
registry.gsc.wustl.edu/alex.paul/cellranger:3.1.0
| Name | Label | Description | Type | Secondary Files |
|---|---|---|---|---|
| chemistry | Assay configuration used, default 'auto' should usually work without issue | string? | ||
| fastq_directory | Array of directories containing fastq files | Directory[] | ||
| reference | Transcriptome reference compatible with input species and Cell Ranger | Directory | ||
| sample_name | Sample name, must be same as name specified in sample sheet in previous mkfastq step | string |
| Name | Label | Description | Type | Secondary Files |
|---|---|---|---|---|
| out_dir | Directory |