Man pages for malemay/HaplotypeMiner
Gene-centered haplotyping from SNP data

clusterGenerate clusters of markers in high linkage disequilibrium
cluster_selectionSelecting marker clusters according to filtering criteria
compute_ldLinkage disequilibrium computation
density_plotPlot of marker density along chromosome
distance_plotPlot of linkage disequilibrium as a function of the distance...
genotype_filterFilter SNP data
genotype_plotTitle
gmgia_haplotypesAnalysis of gene _GmGia_ of soybean
haplo_graphsGenerate graphical output of a haplotype analysis
haplo_logfileGenerate the logfile of a haplotype analysis
haplo_outputOutput the results of a haplotype analysis to disk
haplo_paramsTitle
haplo_selectionGenerate a selection of markers appropriate for haplotype...
HaplotypeMinerHaplotypeMiner: Gene-centered haplotyping from SNP data
haplotypesTitle
is_validTitle
ld_plotGenerates a tile plot of the LD of the given snp_data.
macTitle
marker_subsetSubsets a snp_data by keeping only certain markers.
r2exprConvert r^2 measure into a printable expression
read_hapmapParse a hapmap file.
read_kinshipTitle
read_structureTitle
read_vcfParse a vcf file.
restore_markersTitle
subclusterDrop markers in perfect LD with adjacent markers, keeping...
write_hapmapExport an snp_data into the hapmap format.
write_vcfWrite VCF output
malemay/HaplotypeMiner documentation built on Aug. 11, 2018, 11:07 a.m.