-
Notifications
You must be signed in to change notification settings - Fork 0
smartseq analysis
The Terra environment has over 1500 workflows sourced from public workflows in the workflow repository as well as DockStore. You are welcome to contribute a workflow and contribute to open science. To browse workflows start here, Terra workflows.
The BCDC has been working with the BICCN community and the Human Cell Atlas (HCA) project to provide a consistent Full Transcript (Smart-seq2/4) pipeline to be offered to both communities. You are welcome to use any available pipeline (or provide your own public or private pipeline), but we hope you consider the Smart-seq2/4 pipeline from the HCA that has been improved given feedback from the BICCN community. The easiest way to get BICCN data to use in the Smart-seq2/4 pipeline is through the NeMO archive.
- The Smart-seq Pipeline is documented here.
- A featured workspace with the Smart-seq pipeline installed can be found here.
- To use the workspace you will need to log in, set-up billing, and clone the workspace. The featured workspace will guide you through using the pipeline.
- The GitHub repo and more detailed technical documentation can be found here.
We are excited to hear your feedback on the Optimus pipeline. Please send your questions directly to our team at [email protected] .