Bcbio-nextgen tutorial » History » Revision 5
Revision 4 (Bryan Cosca, 03/16/2015 03:09 PM) → Revision 5/11 (Bryan Cosca, 03/16/2015 07:01 PM)
h1. Running bcbio-nextgen using Arvados WIP h2. Uploading data through the web and using it on Arvados # In your home project, click on the blue *+ Add data* button in the top right. # Click *Upload files from my computer* # Click *Choose Files* and choose the 2 paired end fastq files you would like to run bcbio-nextgen on. # Once you're ready, click *> Start* # Feel free to rename your Collection so you can remember it later. Click on the pencil icon in the top left corner next to *New collection* # Once that is uploaded, navigate back to the dashboard and click on *Run a pipeline...* and choose bcbio-nextgen pipeline. # You can change the input by clicking on the *[Choose]* button next to the *R1 parameter* and *R2 parameter*. # Input your left fastq file as R1 and your right fastq file as R2. # For each fastq file, click on the dropdown menu, click on your newly-created project, and choose your desired input collection. # Click *Run* to run bc-bio on your data! WIP h2. Uploading data through your shell and using it on Arvados WIP h3. FAQ WIP