Workflows
These workflows are associated with Identification of the micro-organisms in a beer using Nanopore sequencing
To use these workflows in Galaxy you can either click the links to download the workflows, or you can right-click and copy the link to the workflow which can be used in the Galaxy form to import workflows.
Identification of the micro-organisms in a beer using Nanopore sequencing
Bérénice Batut, Teresa Müller, Polina Polunina
Last updated Apr 27, 2023
Launch in Tutorial Mode
License:
MIT
Tests: ✅
Results: Not yet automated
flowchart TD 0["input"]; 1["FastQC"]; 2["Porechop"]; 3["fastp"]; 4["Kraken2"]; 5["Filter"]; 6["Filter"]; 7["Krakentools: Convert kraken report file"]; 8["Krona pie chart"]; 0 -->|output| 1; 0 -->|output| 2; 2 -->|outfile| 3; 3 -->|out1| 4; 4 -->|report_output| 5; 4 -->|report_output| 6; 4 -->|report_output| 7; 7 -->|output| 8;
Importing into Galaxy
Below are the instructions for importing these workflows directly into your Galaxy server of choice to start using them!Hands-on: Importing a workflow
- Click on Workflow on the top menu bar of Galaxy. You will see a list of all your workflows.
- Click on galaxy-upload Import at the top-right of the screen
- Provide your workflow
- Option 1: Paste the URL of the workflow into the box labelled “Archived Workflow URL”
- Option 2: Upload the workflow file in the box labelled “Archived Workflow File”
- Click the Import workflow button
Below is a short video demonstrating how to import a workflow from GitHub using this procedure: