Hello Richard, The EvoFold track uses the information in the "Conservation" and "Most Conserved" tracks (in the Comparative Genomics track group).
Note that the EvoFold track on dm3 (D. melanogaster, Apr. 2006) consists of items converted via liftOver from the dm2 assembly (D. melanogaster, Apr. 2004). Therefore, both dm2 and dm3 Evofold tracks use the dm3 "Conservation" and "Most Conserved" tracks. You can get to detailed information on both tracks by clicking on the blue track name on the main Genome Browser page (http://genome.ucsc.edu/cgi-bin/hgTracks). The Conservation track details include a list of assemblies that were used for the Multiz alignment, as well as the phylogenetic tree used to generate the multiple alignment. I hope this answers your question. Please feel free to write back to [email protected] if you have further questions. -- Brooke Rhead UCSC Genome Bioinformatics Group On 11/09/08 17:42, Richard Lin Zhou wrote: > Is it possible to provide the parameters that were used to generate the > EvoFold track in the Tables on D. melanogaster? (The Phelogenetic tree > and alignment input etc). > > _______________________________________________ > Genome maillist - [email protected] > http://www.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
