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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 cellxgene@chanzuckerberg.com 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. |