Package edu.cmu.cs.sb.core

Class Summary
DataSetCore The class encapsulates a set of gene expression data
DataTable Class encapsulates a panel which is used to display the direct contents of a file in table format
GoAnnotations The class encapsulates the data and functions related to the Gene Ontology and gene set enrichment analysis
GoAnnotations.GoRec Stores GO enrichment results for one category
GoAnnotations.GoResults Encapsulates a set of GO enrichment results
GoAnnotations.ProfileGORankingRec Stores info about a profile's ranking according to the current order by criteria
GoAnnotations.Rec Rec is a Gene Ontology hierarchy record a GO ID will map to the record A record contains a name and a set of parent records
GoAnnotations.RecCompare Comparator for GoRec based on actual size p-value
GoAnnotations.RecCompareBinom Comparator for GoRec based on expected size p-value
GoAnnotations.RecCount A count of the total count of the number of genes in a set (dtotal) and the number selected based on the ordering criteria (dmatch)
GoAnnotations.RecIDpval A record containing a GO ID and a p-val
GoAnnotations.RecIDpval2 A record containing a GO ID and an actual and an expected size p-val
ListDialog  
MultiLineHeaderRenderer Class implements multiple lines in a table header Code based on http://www.codeguru.com/java/articles/126.shtml
SpringUtilities Class for manipulating layout Code from http://java.sun.com/docs/books/tutorial/uiswing/examples/layout/SpringGridProject/src/layout/SpringUtilities.java here is the copyright for that code Copyright (c) 1995 - 2008 Sun Microsystems, Inc.
StatUtil The class implements static methods to compute values related to the binomial, hypergeometric, and normal distribution
TableModelSetST Class implements a table model, which is used for the define gene set table
TableModelST Class implements a standard table model
TableSorter This class is a modifed version of the Java TableSorter class http://java.sun.com/docs/books/tutorial/uiswing/examples/components/TableSorterDemoProject/src/components/TableSorter.java Copyright for this sample code ============================================================== Copyright (c) 1995 - 2008 Sun Microsystems, Inc.
Util Class of static utility functions and static variables