Pattern Support for 'qtl2' Package
Allele plot for SNPs, alleles and allele pairs
Create a function to query genotype probabilities
Summary of features with SNP information
Summary of features
Get exons for set of genes
Summary of genes overlapping SNPs
Collapse genoprob according to pattern
Helper function to set gene locations on plot.
Match features with SNPs
Match genes with SNPs
Plot of merge_feature object
Extract pattern of diplotypes
Turn genotype probabilities into labels
Read fast database with possible rownames
Read genotype probability object from file
Plot scan pattern usign ggplot2
Convert sdp to pattern
Convert SNP info to map
Collapse genoprob according to pattern
Top SNPs organized by allele pattern
Routines in 'qtl2' to study allele patterns in quantitative trait loci (QTL) mapping over a chromosome. Useful in crosses with more than two alleles to identify how sets of alleles, genetically different strands at the same locus, have different response levels. Plots show profiles over a chromosome. Can handle multiple traits together. See <https://github.com/byandell/qtl2pattern>.