Cellxgene enables scientists to annotate, publish, find, download, explore and analyze single cell datasets. Cellxgene has two offerings (which both give you access to the cellxgene explorer):
- The cellxgene Data Portal - a Software-as-a-Service (SaaS) platform to publish, find, download, and explore single cell data. Enables you to explore yours and other authors' publication ready data.
- cellxgene Desktop - a PyPI package to explore and annotate single cell datasets. Enables you to privately explore single cell data.
Task | Quick Start | Application |
---|---|---|
Analyze & Annotate Private Data | cellxgene Desktop | |
Share & Analyze Private Datasets | Learn how to host cellxgene Desktop Explorer | cellxgene Desktop |
Publish Datasets | In pre-alpha testing. Contact [email protected] to learn more | Data Portal |
Find Public Datasets | Finding data | Data Portal |
Download Datasets | Downloading data | Data Portal |
Explore & Analyze Public Datasets | Exploring data | Data Portal |
The cellxgene documentation has the following major sections:
Section | Purpose |
Data Portal | How to use the Data Portal. |
cellxgene Desktop | How to prepare data and install or host the cellxgene Desktop. |
Explore Data | The Data Portal and cellxgene Desktop have similar UIs and features; This section describes how to use both tools to explore data. |
Contribute | How to contribute to the cellxgene project. |
Community Extensions | cellxgene is MIT licensed, and free to reuse. See how our user community has extended cellxgene. |
Code | Links to the github repositories containing cellxgene Desktop and Data Portal Code. |
Contact Us | How to get in touch with the cellxgene team to give us feedback, make feature requests, or file bugs. |