If you really get stuck you can check for algorithm ideas here: http://www.google.com/search?hl=en&q=biological+alignment+site%3Aciteseer.ist.psu.edu
I'm in the process of writing my own alignment stuff based on exact string matches and just trying it out on some real test cases. If you can cite background on your particular objectives and any known tools and their limitations for your usage that may help many readers here. If you can identify something particularly relevant, contacting authors can be helpful. Mike Marchywka 586 Saint James Walk Marietta GA 30067-7165 404-788-1216 (C)<- leave message 989-348-4796 (P)<- emergency only [EMAIL PROTECTED] Note: Hotmail is blocking my mom's entire ISP claiming it is to reduce spam but probably to force users to use hotmail. Please DON'T assume I am ignoring you and try me on [EMAIL PROTECTED] if no reply here. Thanks. > Date: Fri, 21 Dec 2007 17:00:02 -0800 > From: [EMAIL PROTECTED] > To: [email protected] > Subject: [BiO BB] all vs. all COGs? > > Hi, > > Is there an all-vs-all comparison of COGs out there? I am basically looking > for a distance mapping based on profile alignments between COG families. Has > this been done? > > thanks, > > Iddo > > > > -- > > I. Friedberg > > "The only problem with troubleshooting is that > sometimes trouble shoots back." > _______________________________________________ > BBB mailing list > [email protected] > http://www.bioinformatics.org/mailman/listinfo/bbb _________________________________________________________________ Share life as it happens with the new Windows Live. http://www.windowslive.com/share.html?ocid=TXT_TAGHM_Wave2_sharelife_122007 _______________________________________________ BBB mailing list [email protected] http://www.bioinformatics.org/mailman/listinfo/bbb
