Package | Description |
---|---|
org.corehunter | |
org.corehunter.data | |
org.corehunter.data.simple | |
org.corehunter.objectives.eval |
Modifier and Type | Method and Description |
---|---|
static FrequencyGenotypeData |
API.createBiparentalGenotypeData(byte[][] alleleScores,
String[] ids,
String[] names,
String[] markerNames) |
static FrequencyGenotypeData |
API.createDefaultGenotypeData(String[][] data,
String[] ids,
String[] names,
String[] columnNames) |
static FrequencyGenotypeData |
API.createFrequencyGenotypeData(double[][] frequencies,
String[] ids,
String[] names,
String[] columnNames,
String[] alleleNames) |
static FrequencyGenotypeData |
API.readGenotypeData(String file,
String format) |
Modifier and Type | Method and Description |
---|---|
static double[][] |
API.getAlleleFrequencies(FrequencyGenotypeData data) |
static String[][] |
API.getAlleles(FrequencyGenotypeData data) |
static String[] |
API.getMarkerNames(FrequencyGenotypeData data) |
Modifier and Type | Interface and Description |
---|---|
interface |
BiAllelicGenotypeData
Biallelic data contains the allele score (0/1/2) for markers that have two and only two alleles.
|
interface |
DefaultGenotypeData
Default genotype data with a fixed number of allele observations per individual, for each marker.
|
Modifier and Type | Method and Description |
---|---|
FrequencyGenotypeData |
CoreHunterData.getGenotypicData() |
FrequencyGenotypeData |
GenotypeDataFormat.readData(Path filePath,
uno.informatics.data.io.FileType fileType) |
Constructor and Description |
---|
CoreHunterData(FrequencyGenotypeData genotypicData)
Initialize Core Hunter data consisting only of genotypic data.
|
CoreHunterData(FrequencyGenotypeData genotypicData,
uno.informatics.data.dataset.FeatureData phenotypicData,
DistanceMatrixData distancesData)
Initialize Core Hunter data consisting of genotypic data, phenotypic
traits and/or a precomputed distance matrix.
|
Modifier and Type | Class and Description |
---|---|
class |
SimpleBiAllelicGenotypeData |
class |
SimpleDefaultGenotypeData |
class |
SimpleFrequencyGenotypeData |
Modifier and Type | Method and Description |
---|---|
static FrequencyGenotypeData |
SimpleFrequencyGenotypeData.readData(Path filePath,
uno.informatics.data.io.FileType fileType)
Read genotype data from file.
|
static FrequencyGenotypeData |
SimpleDefaultGenotypeData.readData(Path filePath,
uno.informatics.data.io.FileType type)
Read default genotype data from file.
|
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