August 21, 2010
Viewd08acba

A number of changes to fit.lm1 and crlmmCopynumber. The number of genotypes is now stored as part of the CNSet class object.

Rob Scharp authored on 21/08/2010 02:49:47
Viewe63564b

begin commening the 'normal' matrix as this is not used.

Rob Scharp authored on 21/08/2010 02:49:25
View69ec864

Added help files for copy number accessors. Fixed bugs in CA, CB, and total copy number methods.

Rob Scharp authored on 21/08/2010 02:49:14
View8160162

Updated sample.CNSetLM helpfile with coercion to v1.0.1 of the CNSet class definition

Rob Scharp authored on 21/08/2010 02:49:06
View97e84a8

Added methods for LinearModelParameter class. removed methods for SnpSuperSet class.

Rob Scharp authored on 21/08/2010 02:48:57
View2551de7

changed computeCopynumber.CNSet to cnCNSet and commented thresholdCopynumber() in cnCNSet.

Rob Scharp authored on 21/08/2010 02:48:31
View805ca33

added ACN method in methods-CNSet.R. CA and CB call ACN.

Rob Scharp authored on 21/08/2010 02:48:26
Viewddc94a5

commented gc() calls

Rob Scharp authored on 21/08/2010 02:48:21
View2c958cf

Changed generic for CA and CB to include index i for markers and index j for samples

Rob Scharp authored on 21/08/2010 02:48:17
View752632c

added totalCopyNumber method to methods-CNSet (removed from oligoClasses)

Rob Scharp authored on 21/08/2010 02:48:11
View63fb6e4

Added CA, CB methods to methods-CNSet.R

Rob Scharp authored on 21/08/2010 02:48:08
View88f551c

commented CA<- CB<- in nonpolymorphic, polymorphic, and computeCopynumber functions

Rob Scharp authored on 21/08/2010 02:48:04
Viewbf24450

v1.7.11 removed 'copyNumber' method from methods-CNSet.R.

Rob Scharp authored on 21/08/2010 02:47:41
View76f72a5

Fixed bug in fit.lm functions -- the correlations were assigned incorrectly.

Rob Scharp authored on 21/08/2010 02:47:23
View518a290

Added accessors for linear model parameters.

Rob Scharp authored on 21/08/2010 02:47:15