Workflow Type: Galaxy
Open
Frozen
Checking 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
master
15a562e
3.0 (earliest) Created 25th Jun 2024 at 11:11 by Helena Rasche
Added/updated 4 files
Frozen
3.0
d7ec76d
![help](/assets/famfamfam_silk/information-8cfe563be76fb11b27c8ba778f5d40ce6800b244d6ca58ef6e9973308efbe534.png)
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Views: 189 Downloads: 82
Created: 25th Jun 2024 at 11:11
Last updated: 25th Jun 2024 at 11:11
![help](/assets/famfamfam_silk/information-8cfe563be76fb11b27c8ba778f5d40ce6800b244d6ca58ef6e9973308efbe534.png)
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