net.maizegenetics.analysis.imputation

Class AGPMap

net.maizegenetics.analysis.imputation.AGPMap

public class AGPMap

Constructor Detail

AGPMap

public AGPMap()

AGPMap

public AGPMap(java.io.File mapfile)

AGPMap

public AGPMap(java.io.File mapfile,
              boolean useAgpV2)

Method Detail

getInterval

public java.lang.Object[] getInterval(int chromosome,
                                      int position)

getFlankingMarkerIndices

public kotlin.Array[] getFlankingMarkerIndices(int chromosome,
                                               double geneticPosition)

getCmFromPosition

public double getCmFromPosition(int chromosome,
                                int position)

getPositionFromCm

public int getPositionFromCm(int chromosome,
                             double cM)

getFirstGeneticPosition

public double getFirstGeneticPosition(int chromosome)

getLastGeneticPosition

public double getLastGeneticPosition(int chromosome)

getPhysPos

public int getPhysPos(int markerIndex)

getGeneticPos

public double getGeneticPos(int markerIndex)

getMarkerPosition

public static int getMarkerPosition(java.lang.Object[] marker)

getMarkerName

public static java.lang.String getMarkerName(java.lang.Object[] marker)

getMarkerNumber

public static int getMarkerNumber(java.lang.Object[] marker)