Todos

ClassClass Todos CountMethod with Todos
baseCode.bio.geneset.GONames 0 2
baseCode.common.Distanceable 0 1
baseCode.dataFilter.RowAbsentFilter 0 1
baseCode.dataStructure.graph.DirectedGraph 1 1
baseCode.gui.JMatrixDisplay 0 1
baseCode.gui.TreePanel 1 0
baseCode.gui.WizardStep 0 1
baseCode.math.MatrixRowStats 1 1
baseCode.math.MatrixStats 0 1
baseCode.math.Stats 0 1

baseCode.bio.geneset.GONames

Method Todos
addClass(): this should modify the tree representation too.
Method Todos
modifyClass(): this should modify the tree representation too.

baseCode.common.Distanceable

Method Todos
toCollection(): not very elegant...

baseCode.dataFilter.RowAbsentFilter

Method Todos
validateFlags(): this should check more carefully - actually test that the rows are all the same.

baseCode.dataStructure.graph.DirectedGraph

Class Todos
do something about cyclicity; make this a dag or a subclass...
Method Todos
treeView(): note that nodes are only allowed to have one parent in DefaultMutableTreeNodes

baseCode.gui.JMatrixDisplay

Method Todos
saveImage(): never read

baseCode.gui.TreePanel

Class Todos
- this really doesn't do much.

baseCode.gui.WizardStep

Method Todos
addHelp(): why the spaces for layout?

baseCode.math.MatrixRowStats

Class Todos
Have min() and max() throw an EmptyMatrixException -- this exception class does not yet exist and needs to be defined somewhere.
Method Todos
sums(): calls new a lot.

baseCode.math.MatrixStats

Method Todos
correlationMatrix(): this is pretty inefficient - calls new

baseCode.math.Stats

Method Todos
cv(): offer a regularized version of this function.