Uses of Class
util.bio.parsers.UCSCGeneLine

Packages that use UCSCGeneLine

trans.main	Principle classes and scripts used in TiMAT2 analysis.
util.bio.annotation	For representing gene annotation.
util.bio.parsers	Parsers and extractors, fasta, quality, text, gff....

Uses of UCSCGeneLine in trans.main

Methods in trans.main that return UCSCGeneLine

UCSCGeneLine

ScoredGene.getGene()

Constructors in trans.main with parameters of type UCSCGeneLine

ScoredGene(UCSCGeneLine geneReference, float[][] treatmentValues, float[][] controlValues)

Uses of UCSCGeneLine in util.bio.annotation

Methods in util.bio.annotation with parameters of type UCSCGeneLine

java.lang.String[]	ExportIntronicRegions.fetchIntrons(boolean[] mask, UCSCGeneLine[] genes)
boolean[]	ExportIntronicRegions.makeExonMask(UCSCGeneLine[] genes)

Uses of UCSCGeneLine in util.bio.parsers

Methods in util.bio.parsers that return UCSCGeneLine

UCSCGeneLine[]

UCSCGeneModelTableReader.getGeneLines()