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
View33a5ea6

Added methods for flags and flags<-. Added 'flags' as an element to the LinearModelParameter object

Rob Scharp authored on 21/08/2010 02:49:41
Viewc45787d

Renamed computeCN crlmmCopynumber

Rob Scharp authored on 21/08/2010 02:49:37
View8800496

Removed args normal and snpflags from fit.lm* functions. Removed code that initializes the flag and snpflag matrices in computeCN

Rob Scharp authored on 21/08/2010 02:49:34
Viewe84db07

Commented the 2 lines in fit.lm4 indicated below

Rob Scharp authored on 21/08/2010 02:49:31
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
View1a1d5f7

Fixed warning for rm(tmp,...) when tmp does not exist

Rob Scharp authored on 21/08/2010 02:48:49
View24da8d2

Fixed bug in call to fit.wls from fit.lm3. Added Ns argument.

Rob Scharp authored on 21/08/2010 02:48:46
View3c6c270

Added Ingo to the crlmm authorship. Moved Rafa to the last position.

Rob Scharp authored on 21/08/2010 02:48:43
Viewb408521

removed weighted.lm option for crlmmCopynumber

Rob Scharp authored on 21/08/2010 02:48:39
View9c2244b

commented all of the old crlmmCopynumber code. Starting to move crlmmCopynumberLD.

Rob Scharp authored on 21/08/2010 02:48:35
View2551de7

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

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