Workflows

These workflows are associated with Genome annotation with Prokka

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.

Genome Annotation with Prokka [Feb 2020]

Last updated Oct 21, 2020

Launch in Tutorial Mode question
License: None Specified, defaults to CC-BY-4.0
Tests: ✅ Results: Not yet automated

flowchart TD
  0["ℹ️ Input Dataset\ncontigs.fasta"];
  style 0 stroke:#2c3143,stroke-width:4px;
  1["Prokka"];
  0 -->|output| 1;
  c34faa27-6814-4d75-9fee-ada32558972b["Output\ngff_output"];
  1 --> c34faa27-6814-4d75-9fee-ada32558972b;
  style c34faa27-6814-4d75-9fee-ada32558972b stroke:#2c3143,stroke-width:4px;
  2["JBrowse"];
  0 -->|output| 2;
  1 -->|out_gff| 2;
	

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: