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broadinstitute / single_cell_portal

Tutorials, workflows, and convenience scripts for Single Cell Portal
https://singlecell.broadinstitute.org/single_cell
BSD 3-Clause "New" or "Revised" License
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human-cell-atlas rna-seq-analysis single-cell-genomics

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Single-Cell Portal

Build status

Hello and thank you for using the Single-Cell Portal. We hope the portal will contribute to open science by enabling visualizing and sharing scientific insight and data surrounding single-cell RNA-Seq.

Thank you for being a part of this open science effort!

Site URL

To visit the portal please go to: https://portals.broadinstitute.org/single_cell

Tutorials

For tutorials and descriptions of files please go to: https://github.com/broadinstitute/single_cell_portal/wiki

Convenience Scripts

Scripts to help when working with data files for the portal are made available in this repo and require Python 3. Using these scripts to verify the format of input files can be found at https://github.com/broadinstitute/single_cell_portal/wiki/File-Definitions.

To get set up to use these scripts:

git clone https://github.com/broadinstitute/single_cell_portal.git
cd single_cell_portal
python3 -m venv env --copies
source env/bin/activate
pip install -r requirements.txt

Then install and initialize Google Cloud SDK on your machine; many scripts here require it.

Reporting Bugs and Improvements

To report a bug or suggest an improvement please create a new issue at: https://github.com/broadinstitute/single_cell_portal/issues

Need Help?

Email us at scp-support@broadinstitute.zendesk.com

Happy Science!!!

The Single-Cell Portal Team