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Dear list, Does anyone know how to fix the heritability of the phylogenetic random effect in MCMCglmm in a way that is the equivalent to fixing the phylogenetic signal lambda to 1? I want all the variance attributed to phylogeny...
Dear list, Apologies if this turns out to be a silly question but does predict.MCMCglmm, marginalise residuals by default? I'd like to see how the prediction performs when random effects are not marginalised, i.e., marginal=NULL, but...
Dear list, I'm using MCMCglmm with some random effects, including a phylogeny and a categorical variable, scored along an ordinal scale, e.g., 1 < 2 < 3 <... If my phylogenetic tip names are stored as a character string Taxon (and...
Dear list, I have been using multivariate multiple regression (MMR) in the form lm(Y~X) where Y and X are matrices of response and predictor variables. I know that summary(mlm.object) would give the usual lm statistics for...
Dear list, I have a matrix Y of multiple response variables and a matrix X of predictor variables and I would like to fit a multivariate multiple regression model and compute the R2-value to determine the overall proportion of...
Dear list, I gave up trying to fix my movie3d (rgl library) issue in my PC (completely black gif/png file) and went ahead and installed MacPorts and ImageMagick onto my iMac (OSX ver 10.6.8). I think ImageMagick...
Dear list, I have encountered a problem with the movie3d function in the rgl library where the output movie (gif) or the individual frames (png) are completely black. I have looked on the internet and found a thread titled "movie3d...
Dear Mehdi, You can use the function MCMCglmm in the package of the same name, specifying family="poisson". MCMCglmm automatically accounts for over dispersion in count data. best regards, Manabu On 10 August 2015 at 06:54, Mehdi Abedi <abedimail...
Dear Duncan, That solved it beautifully! Manabu On 23 January 2012 14:07, Duncan Murdoch <murdoch.duncan at gmail.com> wrote: > On 12-01-23 8:50 AM, Manabu Sakamoto wrote: >> >> Dear list, >> >> I gave up trying to fix my...
Dear list, I just recently installed R-2.13.0 on my Windows7. I used to run R-2.10.0. First of all, I used to be able to install R in English (in R-2.10.0) during...
Dear Duncan, Thank you for your reply. I tried rgl.snapshot like this, rgl.snapshot("snapshot.png",fmt="png", top=TRUE) but got a totally black png file. I'm really not sure what this means; is there something wrong...
Dear Jarrod, Thanks for your response. Quality is a ranking in the completeness/missingness of the data; a higher quality data point is scored higher. This is an attempt to control for potential missing information from the response variable. The...
Dear list, I'm not quite sure if this is the right list for this, but I only get this issue when I am running MCMCglmm, so I post it here. I am wondering if anyone has come across this...
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