parallel-accession-download/main Version 1
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Run on usegalaxy.eu
Workflow Type: Galaxy
Frozen
Downloads fastq files for sequencing run accessions provided in a text file using fasterq-dump. Creates one job per listed run accession.
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| Run accessions | #main/Run accessions | Text file containing run accessions (starting with SRR, ERR or DRR), one per line. |
|
Steps
| ID | Name | Description |
|---|---|---|
| 1 | Split accessions to collection | toolshed.g2.bx.psu.edu/repos/bgruening/split_file_to_collection/split_file_to_collection/0.5.1 |
| 2 | fasterq-dump | toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/3.1.0+galaxy1 |
| 3 | flatten paired output | __APPLY_RULES__ |
| 4 | flatten single end output | __APPLY_RULES__ |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| Paired End Reads | #main/Paired End Reads | n/a |
|
| Single End Reads | #main/Single End Reads | n/a |
|
Version History
v0.1.13 (earliest) Created 1st May 2024 at 03:03 by WorkflowHub Bot
Updated to v0.1.13
Frozen
v0.1.13a1cecd3
Creators and SubmitterTool
License
Activity
Views: 113
Created: 1st May 2024 at 03:03
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Teams: Intergalactic Workflow Commission (IWC), Vertebrate Genomes Pipelines in Galaxy, iwc
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