Welcome, Guest. Please Login
YaBB - Yet another Bulletin Board
 
  HomeHelpSearchLogin  
 
Sample size estimation for phylogenetic analysis (Read 1206 times)
Q123
YaBB Newbies
*
Offline


Curious HyPhy user

Posts: 1
Sample size estimation for phylogenetic analysis
Nov 27th, 2013 at 4:50pm
 
Is it possible to use HyPhy to estimate the sample size required for a phylogenetic analysis for a given statistical power and nucleotide substitution (mutation) rate?

Thanks,
Richard
Back to top
 
 
IP Logged
 
Sergei
YaBB Administrator
*****
Offline


Datamonkeys are forever...

Posts: 1658
UCSD
Gender: male
Re: Sample size estimation for phylogenetic analysis
Reply #1 - Nov 29th, 2013 at 11:43am
 
Hi Richard,

The issue of sample size in phylogenetic analysis is not well resolved, and it will generally depend on which quantity you want to estimate (e.g. branch length versus global substitution rate), see Multimedia File Viewing and Clickable Links are available for Registered Members only!!  You need to Login Login for some discussion.

The standard approach here is to decide what you want to estimate and perform power simulations while varying various parameters that influence said power: rates, branch lengths, number of sequences, number of sites, etc.

HTH,
Sergei
Back to top
 

Associate Professor
Division of Infectious Diseases
Division of Biomedical Informatics
School of Medicine
University of California San Diego
WWW WWW  
IP Logged