Checking expected species and contamination in bacterial isolate
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Run on GalaxyChecking expected species and contamination in bacterial isolate
Associated Tutorial
This workflows is part of the tutorial Checking expected species and contamination in bacterial isolate, available in the GTN
Features
- Includes Galaxy Workflow Tests
Thanks to...
Tutorial Author(s): Bérénice Batut
Tutorial Contributor(s): Clea Siguret
Workflow Author(s): Pierre, Bérénice Batut
Funder(s): ABRomics
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| forward_reads | #main/forward_reads | forward_reads |
|
| reverse_reads | #main/reverse_reads | reverse_reads |
|
Steps
| ID | Name | Description |
|---|---|---|
| 2 | Kraken2 | toolshed.g2.bx.psu.edu/repos/iuc/kraken2/kraken2/2.1.1+galaxy1 |
| 3 | Bracken | toolshed.g2.bx.psu.edu/repos/iuc/bracken/est_abundance/2.9+galaxy0 |
| 4 | Recentrifuge | toolshed.g2.bx.psu.edu/repos/iuc/recentrifuge/recentrifuge/1.12.1+galaxy0 |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| bracken_kraken_report | #main/bracken_kraken_report | n/a |
|
| bracken_report_tsv | #main/bracken_report_tsv | n/a |
|
| kraken_report_reads | #main/kraken_report_reads | n/a |
|
| kraken_report_tabular | #main/kraken_report_tabular | n/a |
|
| recentrifuge_data_tabular | #main/recentrifuge_data_tabular | n/a |
|
| recentrifuge_logfile | #main/recentrifuge_logfile | n/a |
|
| recentrifuge_report_html | #main/recentrifuge_report_html | n/a |
|
| recentrifuge_stats_tabular | #main/recentrifuge_stats_tabular | n/a |
|
Version History
2.0 (latest) Created 16th Jul 2024 at 14:09 by Helena Rasche
Added/updated 4 files
Open
master15a562e
3.0 (earliest) Created 25th Jun 2024 at 11:11 by Helena Rasche
Added/updated 4 files
Frozen
3.0d7ec76d
Creators and Submitter
Views: 1428 Downloads: 553 Runs: 0
Created: 25th Jun 2024 at 11:11
Last updated: 25th Jun 2024 at 11:11
AttributionsNone
Related items
https://orcid.org/0000-0001-9760-8992
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