Identification and Evolutionary Analysis of Transcription-Associated Proteins

Run Workflow in Galaxy

• Galaxy Europe
• Galaxy Australia
• Galaxy France
• Galaxy Main
• Import to another server (≥23.0+ only!)

flowchart TD
  0["ℹ️ Input Collection\nInput Dataset Collection"];
  style 0 stroke:#2c3143,stroke-width:4px;
  1["TAPScan Classify"];
  0 -->|output| 1;
  2["Filter"];
  1 -->|taps_detected| 2;
  3["Cut"];
  2 -->|out_file1| 3;
  4["Remove beginning"];
  3 -->|out_file1| 4;
  5["Filter FASTA"];
  4 -->|out_file1| 5;
  0 -->|output| 5;
  6["MAFFT"];
  5 -->|output| 6;
  7["trimAl"];
  6 -->|outputAlignment| 7;
  8["Quicktree"];
  7 -->|trimmed_output| 8;
  9["ETE tree viewer"];
  7 -->|trimmed_output| 9;
  8 -->|output_file| 9;

Inputs

Outputs

Tools

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.

Importing into Galaxy

Hands On: Importing a workflow

1. Click on galaxy-workflows-activity Workflows in the Galaxy activity bar (on the left side of the screen, or in the top menu bar of older Galaxy instances). You will see a list of all your workflows
2. Click on galaxy-upload Import at the top-right of the screen
3. 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”
4. Click the Import workflow button

Below is a short video demonstrating how to import a workflow from GitHub using this procedure:

Version History

For Admins

Installing the workflow tools

wget https://training.galaxyproject.org/training-material/topics/sequence-analysis/tutorials/tapscan-streptophyte-algae/workflows/main_workflow.ga -O workflow.ga
workflow-to-tools -w workflow.ga -o tools.yaml
shed-tools install -g GALAXY -a API_KEY -t tools.yaml
workflow-install -g GALAXY -a API_KEY -w workflow.ga --publish-workflows