Workflow: xenbase-chipseq-pe.cwl
Fetched 2023-01-05 00:52:45 GMT
Verified with cwltool version 3.1.20221201130942
XenBase workflow for analysing ChIP-Seq paired-end data
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
This workflow is Open Source and may be reused according to the terms of:
Apache License 2.0
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| threads | Integer (Optional) | ||
| sra_input_file | File [SRA format] | ||
| chr_length_file | File [Textual format] | ||
| bowtie2_indices_folder | Directory | ||
| illumina_adapters_file | File [FASTA] |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| sra_to_fastq |
../subworkflows/xenbase-sra-to-fastq-pe.cwl
(Workflow)
|
||
| fastq_to_bigwig |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| bed | File | ||
| bigwig | File | ||
| bam_file | File | ||
| bowtie2_log | File | ||
| bamtools_log | File | ||
| picard_metrics | File |
Permalink:
https://w3id.org/cwl/view/git/a9551ece898f619167db58e4b74a6cae2d7f7d13/workflows/xenbase-chipseq-pe.cwl
