Hi, Weiwei, I think you can try fisher exact test simply. Take all genes of your organism as sample pool and your question is that: when you selected two gene lists from the sample pool, how to judge the independence of the two gene lists. The fisher exact test worked for this type of question.
Best wishes, Weibo On Sun, Aug 24, 2008 at 8:55 AM, Weiwei Shi <[EMAIL PROTECTED]> wrote: > Dear listers, > > a little off-topic: > > I am looking for and compare algorithms which can calculate "distance" or > "similarity" between two gene lists with different lengths. > > Any paper, any implementation in R and any suggestion is welcome! > > Thanks, > > -- > Weiwei Shi, Ph.D > Research Scientist > GeneGO, Inc. > > "Did you always know?" > "No, I did not. But I believed..." > ---Matrix III > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > [EMAIL PROTECTED] > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > -- ################################################## Weibo Xie National Center of Plant Gene Research (Wuhan). National Key Laboratory of Crop Genetic Improvement Huazhong Agricultural University Wuhan 430070, China Phone: 86-27-61324632 [[alternative HTML version deleted]] ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
