Showing 5 of total 5 results (show query)
bioc
Qtlizer:Comprehensive QTL annotation of GWAS results
This R package provides access to the Qtlizer web server. Qtlizer annotates lists of common small variants (mainly SNPs) and genes in humans with associated changes in gene expression using the most comprehensive database of published quantitative trait loci (QTLs).
Maintained by Matthias Munz. Last updated 17 days ago.
genomewideassociationsnpgeneticslinkagedisequilibriumeqtlgwasvariant-annotation
11.0 match 3 stars 5.73 score 2 scriptsbioc
CNVrd2:CNVrd2: a read depth-based method to detect and genotype complex common copy number variants from next generation sequencing data.
CNVrd2 uses next-generation sequencing data to measure human gene copy number for multiple samples, indentify SNPs tagging copy number variants and detect copy number polymorphic genomic regions.
Maintained by Hoang Tan Nguyen. Last updated 5 months ago.
copynumbervariationsnpsequencingsoftwarecoveragelinkagedisequilibriumclustering.jagscpp
11.0 match 3 stars 4.92 scorebioc
hierinf:Hierarchical Inference
Tools to perform hierarchical inference for one or multiple studies / data sets based on high-dimensional multivariate (generalised) linear models. A possible application is to perform hierarchical inference for GWA studies to find significant groups or single SNPs (if the signal is strong) in a data-driven and automated procedure. The method is based on an efficient hierarchical multiple testing correction and controls the FWER. The functions can easily be run in parallel.
Maintained by Claude Renaux. Last updated 5 months ago.
clusteringgenomewideassociationlinkagedisequilibriumregressionsnp
11.0 match 4.00 score 2 scriptsbioc
ASAFE:Ancestry Specific Allele Frequency Estimation
Given admixed individuals' bi-allelic SNP genotypes and ancestry pairs (where each ancestry can take one of three values) for multiple SNPs, perform an EM algorithm to deal with the fact that SNP genotypes are unphased with respect to ancestry pairs, in order to estimate ancestry-specific allele frequencies for all SNPs.
Maintained by Qian Zhang. Last updated 5 months ago.
snpgenomewideassociationlinkagedisequilibriumbiomedicalinformaticsgeneticsexperimentaldesign
11.0 match 3.60 score 2 scriptsbioc
hierGWAS:Asessing statistical significance in predictive GWA studies
Testing individual SNPs, as well as arbitrarily large groups of SNPs in GWA studies, using a joint model of all SNPs. The method controls the FWER, and provides an automatic, data-driven refinement of the SNP clusters to smaller groups or single markers.
Maintained by Laura Buzdugan. Last updated 5 months ago.
snplinkagedisequilibriumclustering
11.0 match 3.30 score 1 scripts