Good Afternoon Nicholas: I constructed all of the trees. Can you please clarify what you are looking at and what is different.
--Hiram ----- Original Message ----- From: "Nicholas Price" <[email protected]> To: [email protected] Sent: Thursday, April 14, 2011 3:52:48 PM Subject: Re: [Genome] Tree difference Hi , The phylogenetic trees at http://hgdownload.cse.ucsc.edu/goldenPath/hg19/multiz46way/ and http://hgdownload.cse.ucsc.edu/goldenPath/hg19/phastCons46way/ are very different in respect to Babboon and Rhesus. I read they were generated using fourfold degenerate sites and a phylogentic program and that later on the Baboon and Rhesus were corrected as sister species. Is there any paper or person that can explain to me how the tree was resolved? and why at the link http://hgdownload.cse.ucsc.edu/goldenPath/hg19/phastCons46way the tree still has baboon as an outgroup? Thank you Nicholas On 14 April 2011 17:17, Vanessa Kirkup Swing <[email protected]> wrote: > Hi Nicholas, > > All of the information about how these trees were generated are in the > README.txt files which are located in the current directories of the links > that you provided. Also, please note that in the the README.txt files there > are links to our genomewiki pages that provide more information about how > the tree was corrected. > > I hope this clarifies things for you. If you have further questions, please > contact the mailing list: [email protected]. > > Vanessa Kirkup Swing > UCSC Genome Bioinformatics Group > > > > ----- Original Message ----- > From: "Nicholas Price" <[email protected]> > To: [email protected] > Sent: Thursday, April 14, 2011 5:55:41 AM > Subject: [Genome] Tree difference > > Hi, > > Can you please explain why the phylogenetic trees at > http://hgdownload.cse.ucsc.edu/goldenPath/hg19/multiz46way/ and > http://hgdownload.cse.ucsc.edu/goldenPath/hg19/phastCons46way/ > <http://hgdownload.cse.ucsc.edu/goldenPath/hg19/phastCons46way/>in respect > to the relation between macaque and baboon..How were these trees generated? > > Nicholas > > -- > The oppressed become the oppressors Paulo Freire (1921-1997) > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > -- The oppressed become the oppressors Paulo Freire (1921-1997) _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
