flowchart TD
0["ℹ️ Input Dataset\nIllumina reads R1"];
style 0 stroke:#2c3143,stroke-width:4px;
1["ℹ️ Input Dataset\nIllumina reads R2"];
style 1 stroke:#2c3143,stroke-width:4px;
2["ℹ️ Input Dataset\nlong reads"];
style 2 stroke:#2c3143,stroke-width:4px;
3["fastp on short reads"];
0 -->|output| 3;
1 -->|output| 3;
656e4138-41ab-4561-8989-33de9ac9a2f3["Output\nfastp report on short reads html"];
3 --> 656e4138-41ab-4561-8989-33de9ac9a2f3;
style 656e4138-41ab-4561-8989-33de9ac9a2f3 stroke:#2c3143,stroke-width:4px;
0d53f347-0368-47cb-953a-2e4dac57e013["Output\nfastp filtered R1 reads"];
3 --> 0d53f347-0368-47cb-953a-2e4dac57e013;
style 0d53f347-0368-47cb-953a-2e4dac57e013 stroke:#2c3143,stroke-width:4px;
10fbe1e5-400c-4ffe-8794-9b776b0d7322["Output\nfastp report on short reads json"];
3 --> 10fbe1e5-400c-4ffe-8794-9b776b0d7322;
style 10fbe1e5-400c-4ffe-8794-9b776b0d7322 stroke:#2c3143,stroke-width:4px;
639ed3f7-0e51-4e5d-b6f8-081378962109["Output\nfastp filtered R2 reads"];
3 --> 639ed3f7-0e51-4e5d-b6f8-081378962109;
style 639ed3f7-0e51-4e5d-b6f8-081378962109 stroke:#2c3143,stroke-width:4px;
4["fastp on long reads"];
2 -->|output| 4;
5e0d2c3d-41a4-4823-ae9c-b1e4d2826541["Output\nfastp report on long reads html"];
4 --> 5e0d2c3d-41a4-4823-ae9c-b1e4d2826541;
style 5e0d2c3d-41a4-4823-ae9c-b1e4d2826541 stroke:#2c3143,stroke-width:4px;
e6018ad6-86f4-4e78-8cf2-ccc8b97022fe["Output\nfastp filtered long reads"];
4 --> e6018ad6-86f4-4e78-8cf2-ccc8b97022fe;
style e6018ad6-86f4-4e78-8cf2-ccc8b97022fe stroke:#2c3143,stroke-width:4px;
69f8383b-a1be-4a74-95f4-3dba35e01426["Output\nfastp report on long reads json"];
4 --> 69f8383b-a1be-4a74-95f4-3dba35e01426;
style 69f8383b-a1be-4a74-95f4-3dba35e01426 stroke:#2c3143,stroke-width:4px;
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
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-uploadImport 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:
Download Workflow RO-Crate
View on WorkflowHub