GFam

What is GFam?

GFam is a command-line tool for automatic annotation of gene families. GFam offers a framework for complete genome initiatives and model organism resources to build domain-based gene families, derive meaningful functional labels and maintain family annotation across genome releases seamlessly. Our approach achieves a unified system for grouping proteins based on evolutionary and functional relationships.

GFam can generally be considered stable. We have used it successfully to annotate the whole genome of Arabidopsis thaliana and Arabidopsis lyrata, and we also managed to build gene families for Caenorhabditis elegans, Daphnia pulex, Danio rerio, Dictyostelium discoideum, Drosophila melanogaster, Gallus gallus, Mus musculus and Neurospora crassa.

References

R. Sasidharan, T. Nepusz, D. Swarbreck, E. Huala, and A. Paccanaro
GFam: a platform for automatic annotation of gene families
Nucleic Acids Research, vol. 40, iss. 19, p. 152, 2012.
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Download
Stable version (1.1)
Development version
Data files used in the manuscript

Documentation
GFam manual in HTML
GFam manual in PDF

Bug reports, feedback
Something’s not working for you? Do you think you found an error? Do you want to contribute to the development of GFam? Contact us!

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