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't have a clue as to how to do any of this. Is there any way fro a very R illiterate user to do it? Thanks -- View this message in context: http://r.789695.n4.nabble.com/heritability-estimation-tp3904908p3904908.html Sent from the R help mailing list archive at Nabble.com.
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 reference to using > variance > components in ANOVA, using the kinship or wgaim packages, but I > don't have a > clue as to how to do any of this. > Is there any way fro a very R illiterate user to do it?(I will also admit to at first reading that as "illegitimate". Apologies.) To become less illiterate (and also less "illegitimate" in the r-help context) you should consider first using one of the many search facilities. For instance, at an r-console session, try this: install.packages("sos") require(sos) findFn("heritability") # found 60 matches; retrieving 3 pages 2 3 I don't have the knowledge or experience to pick through all those candidates ... but you presumably do.> > Thanks > > -- > View this message in context: http://r.789695.n4.nabble.com/heritability-estimation-tp3904908p3904908.html > Sent from the R help mailing list archive at Nabble.com. > > ______________________________________________ > R-help at r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code.David Winsemius, MD West Hartford, CT
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 then I would suggest posting specific questions to the mixed model list. On Fri, Oct 14, 2011 at 9:49 AM, Moohbear <acapron at resmaud.net> wrote:> 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't have a > clue as to how to do any of this. > Is there any way fro a very R illiterate user to do it? > > Thanks > > -- > View this message in context: http://r.789695.n4.nabble.com/heritability-estimation-tp3904908p3904908.html > Sent from the R help mailing list archive at Nabble.com. > > ______________________________________________ > R-help at r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. >
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 could help, might be more domain-specific - what kind of traits are you measuring, what type of experiments - so I don't know if that would should be continued on this list. Peter Claussen Gylling Data Management. On Oct 14, 2011, at 8:49 AM, Moohbear wrote:> 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't have a > clue as to how to do any of this. > Is there any way fro a very R illiterate user to do it? > > Thanks > > -- > View this message in context: http://r.789695.n4.nabble.com/heritability-estimation-tp3904908p3904908.html > Sent from the R help mailing list archive at Nabble.com. > > ______________________________________________ > R-help at r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code.