Workflows
These workflows are associated with From peaks to genes
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.
Galaxy Introduction Peaks2Genes - Part 1
Last updated Oct 20, 2020
Launch in Tutorial Mode
License:
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CC-BY-4.0
Tests: ✅
Results: Not yet automated
flowchart TD 0["ℹ️ Input Dataset\nPeaks"]; style 0 stroke:#2c3143,stroke-width:4px; 1["ℹ️ Input Dataset\nGenes"]; style 1 stroke:#2c3143,stroke-width:4px; 2["Select last"]; 0 -->|output| 2; 3["Replace Text"]; 0 -->|output| 3; 4["Get flanks"]; 1 -->|output| 4; 5["Replace Text"]; 3 -->|outfile| 5; 6["Replace Text"]; 5 -->|outfile| 6; 7["Convert Genomic Intervals To BED"]; 6 -->|outfile| 7; 8["Intersect"]; 4 -->|out_file1| 8; 7 -->|output1| 8; 9["Group"]; 8 -->|output| 9; 98be7853-d9dc-4bf6-9913-47a50c2b084b["Output\nchr_count"]; 9 --> 98be7853-d9dc-4bf6-9913-47a50c2b084b; style 98be7853-d9dc-4bf6-9913-47a50c2b084b stroke:#2c3143,stroke-width:4px;
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: