Last data update: 2014.03.03
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Cran Task View
BiocViews
SMO (statistical methods ontology)
Results 1 - 10 of 59 found.[1]
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Images
To calculate the SNP loadings in Principal Component Analysis
● Data Source:
BioConductor
● Keywords: GDS, GWAS, PCA
● Alias: snpgdsPCASNPLoading
●
1 images
To calculate the sample eigenvectors using the specified SNP loadings
● Data Source:
BioConductor
snpgdsPED2GDS
(Package: SNPRelate ) :
Conversion from PLINK PED to GDS
● Data Source:
BioConductor
Calculate the three IBD coefficients (k0, k1, k2) for non-inbred individual pairs by Maximum Likelihood Estimation (MLE) or PLINK Method of Moment (MoM).
● Data Source:
BioConductor
Calculate the log likelihood values from maximum likelihood estimation.
● Data Source:
BioConductor
Calculate the genotype score for pairs of individuals based on identity-by-state (IBS) measure
● Data Source:
BioConductor
● Keywords: GDS, GWAS
● Alias: snpgdsPairScore
●
1 images
A list object of SNP information including rs, chr, pos, allele and allele frequency.
● Data Source:
BioConductor
the class of a SNP list, and its instance is returned from snpgdsSNPList.
● Data Source:
BioConductor
Get a common SNP list by comparing their rs id, chromosome indices and positions.
● Data Source:
BioConductor
To get a logical vector, indicating whether allele references of snplist2 need to be switched, with respect to snplist1.
● Data Source:
BioConductor
providing 
.