User: nadne

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nadne10
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3 years, 5 months ago
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3 years, 9 months ago
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Posts by nadne

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Illumina Genotyping in parallel raise an error
... Hello, I'm trying to genotype an Illumina SNP array. As I have many samples, I run it with the parallel options. library(parallel) library(doMC) ...
snp crlmm illumina written 3.4 years ago by nadne10
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CRLMM: missing mitochondrial SNPs
... I using the function genotype.Illumina from CRLMM package to calls genotyping raw data files of an Illumina HumanOmni 2.5 SNP array. g = genotype.Illumina(cdfName='humanomni25quadv1b', path=full_path_dir, call.method='krlmm') g_c = calls(g) Now, g_c has 2449907 (one for each SNP). But non of the ...
crlmm genotype mitochondria written 3.5 years ago by nadne10
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Recall genotypes from Illumina idat files using crlmm package
... Hello, I want to get the genotype recall from idat files. I have few thousands samples, and I'm not sure how to do that efficiently. I used the next set of commands: library(crlmm) library(ff) library(snow) library(doSNOW) cl <- makeCluster(90, type="SOCK") registerDoSNOW(cl) options("krlmm.co ...
crlmm genotype written 3.8 years ago by nadne10

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