Package trans.cel

Apps and methods for manipulating cel files.

See:
Description

Class Summary

AverageACels	Averages two serialized float[][]s, like xxx.cela files, from the CelFileConverter app.
AveragePCels	Averages serialized float[]s, like xxx.celp files, from the CelProcessor app.
CelFileConverter	Saves text cel files as serialized float[][]s for downstream use by TiMAT applications.
CelLine	Class for holding info about a text cel file line, enables sorting after rotation.
CelMapper	Saves float[]s of intensity values for each cel file ordered by the tpmapFeature file.
CelPHistogram
CelProcessor	Application to process '.cela' files, wrapper for CelMapper, QuantileNormalization.
ChromosomeIndex	Use to keep track of intensities in a array, their chromosome name, and start stop indexes.
ComparatorMultiSetQuantile	For sorting MultiSetQuantile objects by value or chromosome number and position
ComparatorQuantile	For sorting ComparatorQuantile objects by value or chromosome number and position
ControlStats
ConvertTVSToCelps	Converts a tsv file to xxx.celp files (float[]s) linked to the tpmap.
MakeChromosomeSets
MultiSetQuantile	Class holding info relating to one quantile value.
Quantile	Class holding info relating to one quantile value.
QuantileNormalization	Performs quantile normalization on arrays of double values.
RotateCelFile
SplineScalar	Generates multiplicative scalars based on a set of points using a combination of a cubic spline for values within the provided points and linear regression for points outside the value range.
StatIntensityFeatureArray

Package trans.cel Description

Apps and methods for manipulating cel files.