| HyPhy message board | |
|
http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl
Methodology Questions >> How to >> "Lineage Dual' and "Dual" models http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl?num=1253822273 Message started by jingjing on Sep 24th, 2009 at 12:57pm |
|
|
Title: "Lineage Dual' and "Dual" models Post by jingjing on Sep 24th, 2009 at 12:57pm
Dear Simon and Sergei,
I was trying to use the Lineage Dual and Dual model implemented in the Pond and Muse 2005 MBE paper, which allows the dN and dS estimated separately and varies among both branches and sites. But I cannot figure out what are the settings to use them. Esp for the lineage dual model, is it implemented in Hyphy 2.0 or 1.0? If yes, could you please explain to me how to use them, or tell me where can i find the information on commands? Thanks a billion in advance. Best, Jingjing |
|
Title: Re: "Lineage Dual' and "Dual" models Post by Sergei on Sep 25th, 2009 at 9:31am
Hi Jingjing,
If you run dNdSRateAnalysis.bf (found under "Codon Selection Analyses" in Standard Analyses), select "Run Custom" from the "Rate Variation Options" dialog, and then "Lineage Dual" from the "Rate Variation Models" dialog. Cheers, Sergei |
|
HyPhy message board » Powered by YaBB 2.5.2! YaBB Forum Software © 2000-2024. All Rights Reserved. |