Uses of Class
trans.cel.Quantile

Packages that use Quantile

trans.cel

Apps and methods for manipulating cel files.

Uses of Quantile in trans.cel

Methods in trans.cel that return Quantile

static Quantile[][]	QuantileNormalization.makeQuantiles(float[][] values) Makes a Quantile[][] given float[][] where the quantile.position is assigned its array index position and the quantile.value is assigned the float value.
Quantile[][]	QuantileNormalization.getQuantiles() Fetches an array of sorted normalized Quantiles

Methods in trans.cel with parameters of type Quantile

double	QuantileNormalization.calculateMedianOfChromosome(Quantile[] intensities, java.lang.String chromosomeName) Looks in the tpmapInfo for the appropriate chromosome, extracts the intensities from the Quantile[], calculates a median.
static void	QuantileNormalization.normalizeQuantileArrayScores(Quantile[][] quantiles) Takes arrays of Quantile, and averages the values for a given array index.
static void	QuantileNormalization.scaleQuantileArraysByMedian(Quantile[][] quantiles, double targetMedian) Takes arrays of Quantile that have been sorted by value, and scales their values to the target median.
float[]	QuantileNormalization.fetchControlIntensities(Quantile[] q) Uses the control indexes to fetch the control intensities from the Quantile[].
static double	QuantileNormalization.fetchMedianQuantileValue(Quantile[] m) Calculates the median intensity of a sorted Quantile[].
static float	QuantileNormalization.percentile(Quantile[] sortedQs, double percentile) Returns the value of a given percentile from a SORTED Quantile array.
void	QuantileNormalization.sortQuantileArrays(Quantile[][] q) Sorts quantile arrays based on comparator, either position or intensity value.
void	QuantileNormalization.setQuantiles(Quantile[][] quantiles)