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
License: None Specified, defaults to CC-BY-4.0
Tests: ✅ Results: Not yet automated

Download Galaxy Workflow.ga Galaxy Europe Galaxy Australia Galaxy France Galaxy Main Import to another server (≥23.0+ only!) 
flowchart TD
  0["ℹ️ Input Dataset\ncontigs.fasta"];
  style 0 stroke:#2c3143,stroke-width:4px;
  1["Prokka"];
  0 -->|output| 1;
  549f2acb-ca6e-40bd-8170-d9a26396a946["Output\ngff_output"];
  1 --> 549f2acb-ca6e-40bd-8170-d9a26396a946;
  style 549f2acb-ca6e-40bd-8170-d9a26396a946 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 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: