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.