GOSemSim

Implemented five methods proposed by Resnik, Schlicker, Jiang, Lin and Wang respectively for estimating GO semantic similarities. Support many species, including Anopheles, Arabidopsis, Bovine, Canine, Chicken, Chimp, Coelicolor, E coli strain K12 and Sakai, Fly, Human, Malaria, Mouse, Pig, Rhesus, Rat, Worm, Xenopus, Yeast, and Zebrafish.

Authors

Guangchuang YU, School of Public Health, The University of Hong Kong http://ygc.name

Citation

Please cite the following article when using GOSemSim:

Yu G, Li F, Qin Y, Bo X, Wu Y and Wang S. 
GOSemSim: an R package for measuring semantic similarity among GO terms and gene products.
Bioinformatics, 2010, 26(7):976-978. 

URL: http://bioinformatics.oxfordjournals.org/content/26/7/976.full

License

All source code is copyright, under the Artistic-2.0 License. For more information on Artistic-2.0 License see http://opensource.org/licenses/Artistic-2.0

Installation

To install:

• the latest released version: biocLite("GOSemSim")
• the latest development version: install_github("GuangchuangYu/GOSemSim")

Find out more at http://www.bioconductor.org/packages/release/bioc/html/GOSemSim.html and check out the vignette.

External documents

• proper use of GOSemSim
• using GOSemSim to rank proteins obtained by co-IP
• Proper use of GOSemSim

Bugs/Feature requests

• If you have any, let me know. Thx!