[Robast-commits] r265 - in pkg/RobLoxBioC: . R man

[noreply at r-forge.r-project.org]

Author: stamats
Date: 2009-03-12 14:47:44 +0100 (Thu, 12 Mar 2009)
New Revision: 265

Modified:
   pkg/RobLoxBioC/DESCRIPTION
   pkg/RobLoxBioC/R/robloxAffyBatch.R
   pkg/RobLoxBioC/R/robloxMatrix.R
   pkg/RobLoxBioC/man/0RobLoxBioC-package.Rd
   pkg/RobLoxBioC/man/robloxbioc.Rd
Log:
set default to 3-step estimation ...

Modified: pkg/RobLoxBioC/DESCRIPTION
===================================================================
--- pkg/RobLoxBioC/DESCRIPTION	2009-03-11 07:10:32 UTC (rev 264)
+++ pkg/RobLoxBioC/DESCRIPTION	2009-03-12 13:47:44 UTC (rev 265)
@@ -1,6 +1,6 @@
 Package: RobLoxBioC
 Version: 0.1
-Date: 2009-03-07
+Date: 2009-03-12
 Title: Infinitesimally robust estimators for preprocessing omics data
 Description: Functions for the determination of optimally robust
   influence curves and estimators for preprocessing omics data,

Modified: pkg/RobLoxBioC/R/robloxAffyBatch.R
===================================================================
--- pkg/RobLoxBioC/R/robloxAffyBatch.R	2009-03-11 07:10:32 UTC (rev 264)
+++ pkg/RobLoxBioC/R/robloxAffyBatch.R	2009-03-12 13:47:44 UTC (rev 265)
@@ -4,7 +4,7 @@
 setMethod("robloxbioc", signature(x = "AffyBatch"),
     function(x, bg.correct = TRUE, pmcorrect = TRUE, normalize = FALSE,
             add.constant = 32, verbose = TRUE, 
-            eps = NULL, eps.lower = 0, eps.upper = 0.1, steps = 1L, 
+            eps = NULL, eps.lower = 0, eps.upper = 0.1, steps = 3L, 
             mad0 = 1e-4, contrast.tau = 0.03, scale.tau = 10, delta = 2^(-20), sc = 500) {
         if(bg.correct){
             if(verbose) cat("Background correcting ...")

Modified: pkg/RobLoxBioC/R/robloxMatrix.R
===================================================================
--- pkg/RobLoxBioC/R/robloxMatrix.R	2009-03-11 07:10:32 UTC (rev 264)
+++ pkg/RobLoxBioC/R/robloxMatrix.R	2009-03-12 13:47:44 UTC (rev 265)
@@ -3,7 +3,7 @@
 ## matrix
 ###############################################################################
 setMethod("robloxbioc", signature(x = "matrix"),
-    function(x, eps = NULL, eps.lower = 0, eps.upper = 0.1, steps = 1L, mad0 = 1e-4){
+    function(x, eps = NULL, eps.lower = 0, eps.upper = 0.1, steps = 3L, mad0 = 1e-4){
         if(is.null(eps)){
             if(length(eps.lower) != 1 || length(eps.upper) != 1)
                 stop("'eps.lower' and 'eps.upper' have to be of length 1")

Modified: pkg/RobLoxBioC/man/0RobLoxBioC-package.Rd
===================================================================
--- pkg/RobLoxBioC/man/0RobLoxBioC-package.Rd	2009-03-11 07:10:32 UTC (rev 264)
+++ pkg/RobLoxBioC/man/0RobLoxBioC-package.Rd	2009-03-12 13:47:44 UTC (rev 265)
@@ -13,7 +13,7 @@
 \tabular{ll}{
 Package: \tab RobLoxBioC\cr
 Version: \tab 0.1 \cr
-Date: \tab 2009-03-07 \cr
+Date: \tab 2009-03-12 \cr
 Depends: \tab R (>= 2.8.1), methods, methods, Biobase, affy\cr
 LazyLoad: \tab yes\cr
 License: \tab LGPL-3\cr

Modified: pkg/RobLoxBioC/man/robloxbioc.Rd
===================================================================
--- pkg/RobLoxBioC/man/robloxbioc.Rd	2009-03-11 07:10:32 UTC (rev 264)
+++ pkg/RobLoxBioC/man/robloxbioc.Rd	2009-03-12 13:47:44 UTC (rev 265)
@@ -12,11 +12,11 @@
 \usage{
 robloxbioc(x, ...)
 
-\S4method{robloxbioc}{matrix}(x, eps = NULL, eps.lower = 0, eps.upper = 0.1, steps = 1L, mad0 = 1e-4)
+\S4method{robloxbioc}{matrix}(x, eps = NULL, eps.lower = 0, eps.upper = 0.1, steps = 3L, mad0 = 1e-4)
 
 \S4method{robloxbioc}{AffyBatch}(x, bg.correct = TRUE, pmcorrect = TRUE, normalize = FALSE, 
                                  add.constant = 32, verbose = TRUE,  
-                                 eps = NULL, eps.lower = 0, eps.upper = 0.1, steps = 1L, mad0 = 1e-4,
+                                 eps = NULL, eps.lower = 0, eps.upper = 0.1, steps = 3L, mad0 = 1e-4,
                                  contrast.tau = 0.03, scale.tau = 10, delta = 2^(-20), sc = 500)
 }
 \arguments{