<HTML><BODY style="word-wrap: break-word; -khtml-nbsp-mode: space; -khtml-line-break: after-white-space; ">Bela,<DIV><BR class="khtml-block-placeholder"></DIV><DIV>Re. OmegaMap. This would be a great addition to Bio-Linux to sit alongside PAML. It would also be very useful for my NERC-PGP project so I for one would be keen to see it in forthcoming distributions of Bio-Linux. Thanks also to Jose for spotting this.</DIV><DIV><BR class="khtml-block-placeholder"></DIV><DIV>Steve<BR><DIV><DIV>On 11 Jul 2006, at 23:03, Jose Andres wrote:</DIV><BR class="Apple-interchange-newline"><BLOCKQUOTE type="cite"><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Hi all,</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Daniel Wilson has recently put out a software package to estimate diversifying selection in the presence of recombination using the the ratio of non-synonymous to synonymous polymorphism (see Wilson and McVean 2006, Genetics 172: 1411-1425). I am most interested in using this software in a Bio-linux machine and I was wondering if someone has already done it.<SPAN class="Apple-converted-space"> </SPAN>Daniel's web page only supports the Windows XP exacutable, but the source code is also available (<A href="http://www.danielwilson.me.uk/frame.html?http://www.danielwilson.me.uk/publications.html">http://www.danielwilson.me.uk/frame.html?http://www.danielwilson.me.uk/publications.html</A>).</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">I can always compile the program using make, but I am not sure how I should install the program [sorry<SPAN class="Apple-converted-space"> </SPAN>I am still at the steep part of my (bio)linux learning curve].</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Any suggestions? Has anyone use OmegaMap on a Bio-linux machine?</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Another possibility <SPAN class="Apple-converted-space"> </SPAN>(assuming there is a critical mass of Bio-linux users interested in this package) is to develop a Bio-linux version based the source code already available. I do not if this is possible or how difficult it might be, but it is probably worth trying (my apologies for not been able to do it myself).</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Thanks,</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">/Jose</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">--------------------------------------------------------------</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Jose A. Andres, PhD</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Dpt. Ecology and Evolutionary Biology</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Cornell University.<SPAN class="Apple-converted-space"> </SPAN>14850 Ithaca, NY, USA</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">_______________________________________________</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Bio-linux mailing list</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><A href="mailto:Bio-linux@envgen.nox.ac.uk">Bio-linux@envgen.nox.ac.uk</A></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><A href="http://envgen.nox.ac.uk/mailman/listinfo/bio-linux">http://envgen.nox.ac.uk/mailman/listinfo/bio-linux</A></DIV> </BLOCKQUOTE></DIV><BR><DIV> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica">=============</FONT></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica">Dr. Steve Paterson</FONT></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica">Lecturer in host-parasite biology</FONT></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica">School of Biological Sciences</FONT></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica">University of Liverpool</FONT></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica">LIVERPOOL, UK</FONT></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica">L69 7ZB</FONT></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px; font: 12.0px Helvetica; min-height: 14.0px"><BR></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica">Tel. 0151 795 4521</FONT></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica">Fax. 0151 795 4408</FONT></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica">email <A href="mailto:s.paterson@liv.ac.uk">s.paterson@liv.ac.uk</A></FONT></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica">Rm. 202 Biosciences Building<SPAN class="Apple-converted-space"> </SPAN></FONT></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica"><A href="http://pcwww.liv.ac.uk/~stevep11/PatHome.html">http://pcwww.liv.ac.uk/~stevep11/PatHome.html</A></FONT></P> </DIV><BR></DIV></BODY></HTML>