Re: [R] LDheatmap

Yes, I used LDheatmap just a moment... First you need to convert your matrix (ej. your geno file) to snp.matrix usin the package "chopsticks", web> https://bioconductor.org/packages/release/bioc/html/chopsticks.html. This package is no in R library. You need use a sourse. Use this code> ## try

Re: [R] LDheatmap

Thank you Bert, Yes I looked a this one and I was looking for if any one has used it or not before? My data set is different what they are showing in the paper On Wed, Feb 3, 2016 at 4:00 PM, Bert Gunter wrote: > Have you looked here (found immediately by an internet search!)? > > https://

Re: [R] LDheatmap

Have you looked here (found immediately by an internet search!)? https://cran.r-project.org/web/packages/LDheatmap/vignettes/LDheatmap.pdf Cheers, Bert Bert Gunter "The trouble with having an open mind is that people keep coming along and sticking things into it." -- Opus (aka Berkeley Breath

[R] LDheatmap

Hi all, I am looking for an R package that calculates a pair wise LD (linkage disequilibrium) I came up with library(LDheatmap). has any one used this library? I would appreciate if I get a help how to use this library for my set of data.. My data set look like Geno file Name1 1 1 2 2 2 2 N