Identification of the micro-organisms in a beer using Nanopore sequencing 1.0
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Associated Tutorial
This workflows is part of the tutorial Identification of the micro-organisms in a beer using Nanopore sequencing, available in the GTN
Features
- Includes Galaxy Workflow Tests
Thanks to...
Tutorial Author(s): Polina Polunina, Siyu Chen, Bérénice Batut, Teresa Müller
Workflow Author(s): Bérénice Batut, Teresa Müller, Polina Polunina
Funder(s): Gallantries: Bridging Training Communities in Life Science, Environment and Health
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| input | input | n/a |
|
Steps
| ID | Name | Description |
|---|---|---|
| 1 | FastQC | toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.73+galaxy0 |
| 2 | Porechop | toolshed.g2.bx.psu.edu/repos/iuc/porechop/porechop/0.2.4+galaxy0 |
| 3 | fastp | toolshed.g2.bx.psu.edu/repos/iuc/fastp/fastp/0.23.2+galaxy0 |
| 4 | Kraken2 | toolshed.g2.bx.psu.edu/repos/iuc/kraken2/kraken2/2.1.1+galaxy1 |
| 5 | Filter | Filter1 |
| 6 | Filter | Filter1 |
| 7 | Krakentools: Convert kraken report file | toolshed.g2.bx.psu.edu/repos/iuc/krakentools_kreport2krona/krakentools_kreport2krona/1.2+galaxy0 |
| 8 | Krona pie chart | toolshed.g2.bx.psu.edu/repos/crs4/taxonomy_krona_chart/taxonomy_krona_chart/2.7.1+galaxy0 |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| kraken_report | kraken_report | n/a |
|
| krakentool_report | krakentool_report | n/a |
|
Version History
1.0 (earliest) Created 25th Jun 2024 at 10:57 by Helena Rasche
Added/updated 4 files
Open
master157840b
Creators and Submitter
Views: 440 Downloads: 105
Created: 25th Jun 2024 at 10:57
Last updated: 25th Jun 2024 at 10:57
Tags AttributionsNone
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