net.maizegenetics.dna.map

Class TagGWASMap

AbstractTags

AbstractTagsHDF5

net.maizegenetics.dna.map.TagGWASMap

All Implemented Interfaces:

Tags

public class TagGWASMap
extends AbstractTagsHDF5

Holding tag genetic mapping result from GWAS. It includes attributes and methods for machine learning prediction of mapping accuracy

Constructor Detail

TagGWASMap

public TagGWASMap(java.lang.String tagGWASMapFileS)

TagGWASMap

public TagGWASMap(java.lang.String gwasMappingResultFileS,
                  java.lang.String tagCountFileS,
                  java.lang.String tagGWASMapFileS)

TagGWASMap

public TagGWASMap(java.lang.String gwasMappingFileS,
                  java.lang.String topmFileS,
                  java.lang.String tagCountFileS,
                  java.lang.String tagGWASMapFileS)

Method Detail

addAlignment

public void addAlignment(TagsOnPhysicalMapV3 topm)

initializeHDF5

public void initializeHDF5(java.lang.String tagGWASMapFileS)

readHDF5

public void readHDF5(java.lang.String hdf5FileS)

populateBlock

public void populateBlock(int blockIndex)

readBlock

public void readBlock(int blockIndex)

writeBlock

public void writeBlock(int blockIndex)

getTagGWASMapInfo

public TagGWASMapInfo getTagGWASMapInfo(int tagIndex)