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Cellbase is a centralised database that integrates lots of information from several main genomic and biological databases used for genomic annotation and clinical variant prioritisation. See Overview for details.

CellBase is open-source and freely available at https://github.com/opencb/cellbase

You can search CellBase using your favourite programming language:



installationAPIdocstutorials
REST API

RESTful Web Services
Python

pypi




R

Bioconductor



Vignette
JavaInstallation

Javadoc





Recent space activity

CellBase 4.5.3 released
CellBase 4.5.1 released

Some important fixes made, please check

https://github.com/opencb/cellbase/releases/tag/v4.5.1

Web services updated and accessible at:

http://bioinfo.hpc.cam.ac.uk/cellbase/webservices



CellBase v4.5.0 Released

New data sources, new web services and many variant annotation improvements (structural variants annotation, new population frequencies datasets and much more).

Accessible now at

http://bioinfo.hpc.cam.ac.uk/cellbase/webservices/

Please, have a look to the release notes document at

https://github.com/opencb/cellbase/releases/tag/v4.5.0

variation_chr*.full.json.gz GRCh37 files in our http download server have been updated to include gnomAD frequencies:

http://bioinfo.hpc.cam.ac.uk/downloads/cellbase/v4/homo_sapiens_grch37/variation/json/

CellBaseR Bioconductor

An R CellBase client (CellBaseR) is now distributed by Bioconductor

https://bioconductor.org/packages/release/bioc/html/cellbaseR.html

gnomAD exomes and genomes population frequencies (GRCh37) are now provided as part of the variant annotation results:

http://bioinfo.hpc.cam.ac.uk/cellbase/webservices/rest/v4/hsapiens/genomic/variant/19:45411941:T:C/annotation

http://gnomad.broadinstitute.org/

Space contributors

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