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://guangchuangyu.github.io
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:
devtools::install_github("GuangchuangYu/GOSemSim")
Find out more at http://www.bioconductor.org/packages/release/bioc/html/GOSemSim.html and check out the vignette.
Documentation
To view the vignette of GOSemSim
installed in your system, start R and enter:
vignette("GOSemSim", package="GOSemSim")
More documents can be found in http://www.bioconductor.org/packages/clusterProfiler, http://www.bioconductor.org/packages/DOSE and http://guangchuangyu.github.io/tags/gosemsim.
Bugs/Feature requests
- If you have any, let me know. Thx!