HyPhy message board - Modeltest step by step?

	Welcome, Guest. Please Login

HyPhy message board › HYPHY Package › HyPhy feedback › Modeltest step by step?

(Moderators: Sergei, Simon)

‹ Previous Topic | Next Topic ›

Page Index Toggle

Pages: 1

Send Topic

Print

Modeltest step by step? (Read 3925 times)

qiang YaBB Newbies Offline I love YaBB 1G - SP1! Posts: 4	Modeltest step by step? Oct 27^th, 2006 at 9:14pm I am a new user.I want implenment Modeltest in PY-PHY from multiple nucleotide sequence alignments.It maybe need a tree file,but I do not kown how to create it. It's so stupied,but I hope you give me some help.
Back to top	IP Logged

Sergei YaBB Administrator Offline Datamonkeys are forever... Posts: 1658 UCSD Gender:	Re: Modeltest step by step? Reply #1 - Oct 27^th, 2006 at 10:03pm Dear qiang, HyPhy already has an implementation of ModelTest. You need to go to Standard Analyses (which is found under the 'Analysis' menu in GUI versions), select ModelComparison, and then choose ModelTest.bf Cheers, Sergei
Back to top	Associate Professor Division of Infectious Diseases Division of Biomedical Informatics School of Medicine University of California San Diego WWW IP Logged

qiang YaBB Newbies Offline I love YaBB 1G - SP1! Posts: 4	Re: Modeltest step by step? Reply #2 - Oct 28^th, 2006 at 9:37pm hi,seiger thank you,i have got it. but using the selected models , i want to implemente likelihood rate test for a significant deparcrture from the hypothesis of a global moleculer clock.How do I do? thank you for your attention!
Back to top	IP Logged

Sergei YaBB Administrator Offline Datamonkeys are forever... Posts: 1658 UCSD Gender:	Re: Modeltest step by step? Reply #3 - Oct 30^th, 2006 at 11:36am Dear qiang, StandardAnalyses>MolecularClock>MolecularClock.bf will do this. Cheers, Sergei
Back to top	Associate Professor Division of Infectious Diseases Division of Biomedical Informatics School of Medicine University of California San Diego WWW IP Logged

qiang YaBB Newbies Offline I love YaBB 1G - SP1! Posts: 4	Re: Modeltest step by step? Reply #4 - Oct 31^st, 2006 at 6:03am "-2(Ln Likelihood Ratio)=416.386 Constrained parameters:31 P-Value:0" I am not good at statistics.How about this result? Is it reject moleculer clock assumption? Thank you very much!!
Back to top	IP Logged

Sergei YaBB Administrator Offline Datamonkeys are forever... Posts: 1658 UCSD Gender:	Re: Modeltest step by step? Reply #5 - Oct 31^st, 2006 at 6:09am Dear qiang, Yes. Low p-value = high significance of your result (i.e. you reject the null hypothesis, in this case molecular clock). Cheers, Sergei
Back to top	Associate Professor Division of Infectious Diseases Division of Biomedical Informatics School of Medicine University of California San Diego WWW IP Logged

qiang YaBB Newbies Offline I love YaBB 1G - SP1! Posts: 4	Re: Modeltest step by step? Reply #6 - Nov 4^th, 2006 at 3:49am seiger,thank you very much.I had worked out!
Back to top	IP Logged

Page Index Toggle

Pages: 1

Send Topic

Print

‹ Previous Topic | Next Topic ›

Top of this page

HyPhy message board » Powered by YaBB 2.5.2!
YaBB Forum Software © 2000-2024. All Rights Reserved.

Valid XHTML

Valid CSS

Powered by Perl

Source Forge