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.

flowchart TD
  0["Peaks"];
  1["Genes"];
  2["Select last"];
  3["Replace Text"];
  4["Get flanks"];
  5["Replace Text"];
  6["Replace Text"];
  7["Convert Genomic Intervals To BED"];
  8["Intersect"];
  9["Group"];
  0 -->|output| 2;
  0 -->|output| 3;
  1 -->|output| 4;
  3 -->|outfile| 5;
  5 -->|outfile| 6;
  6 -->|outfile| 7;
  4 -->|out_file1| 8;
  7 -->|output1| 8;
  8 -->|output| 9;

	

Importing into Galaxy

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: