| Package | Description |
|---|---|
| org.janelia.thickness | |
| org.janelia.thickness.inference | |
| org.janelia.thickness.inference.fits | |
| org.janelia.thickness.plugin |
| Modifier and Type | Method and Description |
|---|---|
static <T extends RealType<T>> |
ShiftCoordinates.collectShiftsFromMatrix(double[] coordinates,
RandomAccessibleInterval<T> correlations,
double[] multipliers,
RandomAccessibleInterval<double[]> localFits,
double[] shiftsArray,
double[] weightSums,
double[] shiftWeights,
Options options) |
| Modifier and Type | Method and Description |
|---|---|
Options |
Options.clone() |
static Options |
Options.generateDefaultOptions() |
static Options |
Options.read(String filename) |
| Modifier and Type | Method and Description |
|---|---|
void |
InferFromMatrix.applyShifts(double[] coordinates,
double[] shifts,
double[] regularizerCoordinates,
PermutationTransform permutation,
Options options) |
<T extends RealType<T> & NativeType<T>,W extends RealType<W>> |
InferFromMatrix.estimateZCoordinates(RandomAccessibleInterval<T> inputMatrix,
double[] startingCoordinates,
double[] functionEstimate,
double[] scalingFactors,
RandomAccessibleInterval<W> estimateWeights,
double[] shiftWeights,
Visitor visitor,
Options options) |
<T extends RealType<T> & NativeType<T>> |
InferFromMatrix.estimateZCoordinates(RandomAccessibleInterval<T> matrix,
double[] startingCoordinates,
Options options) |
<T extends RealType<T> & NativeType<T>> |
InferFromMatrix.estimateZCoordinates(RandomAccessibleInterval<T> inputMatrix,
double[] startingCoordinates,
Visitor visitor,
Options options) |
<T extends RealType<T>,W extends RealType<W>> |
InferFromMatrix.getMediatedShifts(RandomAccessibleInterval<T> matrix,
RandomAccessibleInterval<T> scaledMatrix,
double[] lut,
double[] scalingFactors,
int iteration,
RandomAccessibleInterval<double[]>[] correlationFitsStore,
double[] shiftsArray,
double[] weightSums,
RandomAccessibleInterval<W> estimateWeightMatrix,
double[] shiftWeights,
Options options) |
void |
InferFromMatrix.preventReorder(double[] coordinates,
Options options) |
void |
InferFromMatrix.Regularizer.regularize(double[] coordinates,
Options options) |
void |
InferFromMatrix.NoRegularization.regularize(double[] coordinates,
Options options) |
void |
InferFromMatrix.ModelRegularization.regularize(double[] coordinates,
Options options) |
| Modifier and Type | Method and Description |
|---|---|
<T extends RealType<T>,W extends RealType<W>> |
AbstractCorrelationFit.estimateFromMatrix(RandomAccessibleInterval<T> correlations,
double[] coordinates,
AbstractLUTRealTransform transform,
RandomAccessibleInterval<W> estimateWeightMatrix,
Options options,
InterpolatorFactory<T,RandomAccessible<T>> interpolatorFactory) |
| Constructor and Description |
|---|
LocalCorrelationFitAverage(int dimension,
Options o) |
| Modifier and Type | Method and Description |
|---|---|
Visitor |
ZPositionCorrection.VisitorFactory.create(RandomAccessibleInterval<DoubleType> matrix,
Options options) |
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