Workflow: batch-preprocess-ont.cwl
Fetched 2024-11-27 17:33:14 GMT
Verified with cwltool version 3.1.20221201130942
- Selected
- |
- Default Values
- Nested Workflows
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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 |
|---|---|---|---|
| ref_human_genome | File | ||
| illumina_accessions | String[] |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| main |
preprocess-ont.cwl
(Workflow)
|
||
| merge_bam |
../bio-cwl-tools/samtools/samtools_merge.cwl
(CommandLineTool)
|
Merge multiple BAM files. |
|
| samtools_fastq |
../bio-cwl-tools/samtools/samtools_fastq.cwl
(CommandLineTool)
|
Bam to fastq conversion |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| fastqc_zip | File[] | ||
| multiqc_zips | File[] | ||
| multiqc_htmls | File[] | ||
| fastqc_summary | File[] | ||
| original_fastq1 | File[] | ||
| processed_fastq | File |
Permalink:
https://w3id.org/cwl/view/git/3114ddd28bbee5505a9819b1a84f4896fd0b0992/PreProcessing/batch-preprocess-ont.cwl
