Man pages for bmansfeld/QTLseqR
QTL mapping using Bulk Segregant Analysis of Next Generation Sequencing data.

countSNPs_cppCount number of SNPs within a sliding window
FilterSNPsFilter SNPs based on read depth and quality
getFDRThresholdFind false discovery rate threshold
getGCalculates the G statistic
getPvalsNon-parametric estimation of the null distribution of G'
getQTLTableExport a summarized table of QTL
getSigRegionsReturn SNPs in significant regions
ImportFromGATKImports SNP data from GATK VariablesToTable output
plotGprimeDistPlots Gprime distribution
plotQTLStatsPlots different paramaters for QTL identification
runGprimeAnalysisIdentify QTL using a smoothed G statistic
simulateAlleleFreqRandomly calculates an alternate allele frequency within a...
simulateConfIntSimulation of delta SPP index confidence intervals
simulateSNPindexSimulates a delta SNP-index with replication
tricubeStatCalculate tricube weighted statistics for each SNP
bmansfeld/QTLseqR documentation built on Dec. 10, 2017, 11:22 p.m.