Uses of Package
net.maizegenetics.pangenome.hapCalling

Packages that use net.maizegenetics.pangenome.hapCalling

Package	Description
net.maizegenetics.pangenome.hapCalling

Classes in net.maizegenetics.pangenome.hapCalling used by net.maizegenetics.pangenome.hapCalling

Class and Description
ConvertGBSToSNPs
ConvertRampSeqTagsToMapPlugin Created by zrm22 on 10/4/17.
ExportHaplotypePathToFilePlugin Plugin to export the Multimap exported by a Path finding algorithm to a directory of text files Created by zrm22 on 10/13/17.
ExportVCForTaxonMethodPlugin Exports variant context lists to vcf file.
FastqToHapCountPlugin Plugin to run the read counting method based on bwa mem alignment.
FastqToKmerCountPlugin Created by zrm22 on 10/23/17.
FilterFastqUsingBAMPlugin Created by zrm22 on 9/13/17.
HapCountBestPathPlugin
HapCountBestPathToTextPlugin This plugin processes haplotype node data either from of an inclusion file, or from PHG database tables.
ImportHaplotypePathFilePlugin Plugin to import the haplotypePath files produced by ExportHaplotypePathToFilePlugin.
PathsToVCFPlugin
PathToIgraphPlugin
ScoreRangesByInclusionCountsPlugin Created by zrm22 on 10/11/17.