Re: [R] heritability estimation

2011-10-20 Thread Peter Claussen
Moohbear, I may be able to help, in that I've had some graduate course work in plant breeding and some experience with R. However, I can't tell for certain with the information provided. What papers that use SAS or SPSS are you citing? The question I would ask, in order to determine if I coul

Re: [R] heritability estimation

2011-10-17 Thread Moohbear
Thanks for the info. I am working with Recombinant Inbred Lines(RILs), not pedigree, so most of what I could find does not apply to my work. I've found a couple of tutorials explaining how to use analysis of variance components with lme4, but I don't have multiple measurements per individual per ex

Re: [R] heritability estimation

2011-10-17 Thread Juliet Hannah
Search: "mcmcglmm heritability" to see some discussions using the mcmcglmm package. This package is discussed often on the mixed model list. You can also use the kinship package. It will take some time to get familiar with R. Work through a few of the examples for variance component models, and the

Re: [R] heritability estimation

2011-10-14 Thread David Winsemius
On Oct 14, 2011, at 1:44 PM, Moohbear wrote: Thanks for the sos function, I didn't know about it. Unfortunately, almost all the entries listed are not relevant to my problem. qgen seems to be doing what I want, but gives error message when I type library(qgen): "Error: package 'qgen' was bu

Re: [R] heritability estimation

2011-10-14 Thread Moohbear
Thanks for the sos function, I didn't know about it. Unfortunately, almost all the entries listed are not relevant to my problem. qgen seems to be doing what I want, but gives error message when I type library(qgen): "Error: package 'qgen' was built before R 2.10.0: please re-install it". I've trie

Re: [R] heritability estimation

2011-10-14 Thread David Winsemius
On Oct 14, 2011, at 9:49 AM, Moohbear wrote: Hello, I'm looking for a method to estimate narrow sense heritability of traits in a RIL population. I admit to not knowing that TLA. Papers I've checked either use either SAS or SPSS or do not give any details at all. I've found some referen

[R] heritability estimation

2011-10-14 Thread Moohbear
Hello, I'm looking for a method to estimate narrow sense heritability of traits in a RIL population. Papers I've checked either use either SAS or SPSS or do not give any details at all. I've found some reference to using variance components in ANOVA, using the kinship or wgaim packages, but I don'