extract SRA + viralRNAspades (PE) Version 1
Download RO-Crate
Run on Galaxyextract 1 Id from SRA and assume it is PE as input to viralRNASpades.
Steps
| ID | Name | Description |
|---|---|---|
| 0 | Faster Download and Extract Reads in FASTQ | toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/2.11.0+galaxy1 |
| 1 | rnaviralSPAdes | toolshed.g2.bx.psu.edu/repos/iuc/spades_rnaviralspades/spades_rnaviralspades/3.15.4+galaxy2 |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| Pair-end data (fasterq-dump) | Pair-end data (fasterq-dump) | n/a |
|
| Single-end data (fasterq-dump) | Single-end data (fasterq-dump) | n/a |
|
| Other data (fasterq-dump) | Other data (fasterq-dump) | n/a |
|
| fasterq-dump log | fasterq-dump log | n/a |
|
| rnaviralSPAdes on input dataset(s): Contigs | rnaviralSPAdes on input dataset(s): Contigs | n/a |
|
Version History
Version 1 (earliest) Created 10th Feb 2023 at 10:05 by phytopat gembloux
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Created: 10th Feb 2023 at 10:05
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Teams: Integrated and Urban Plant Pathology Laboratory
Organizations: Liege university
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Les recherches et enseignements développés par le Laboratoire de Phytopathologie Intégrée et Urbaine visent à améliorer la protection des plantes contre les maladies provoquées par les agents pathogènes et à développer de nouveaux modes de production agricole en milieu urbain. Le laboratoire contribue ainsi à répondre aux défis écologiques, environnementaux, climatiques et sociétaux de l’agriculture de demain.
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Public web page: https://www.gembloux.ulg.ac.be/phytopathologie/
