[Qpcr-commits] r143 - in pkg: NormqPCR NormqPCR/man QCqPCR/R

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

Author: jperkins
Date: 2011-07-17 18:05:35 +0200 (Sun, 17 Jul 2011)
New Revision: 143

Modified:
   pkg/NormqPCR/DESCRIPTION
   pkg/NormqPCR/man/NormqPCR-package.Rd
   pkg/QCqPCR/R/qcNormedData.R
Log:
added collate field

Modified: pkg/NormqPCR/DESCRIPTION
===================================================================
--- pkg/NormqPCR/DESCRIPTION	2011-07-12 20:57:37 UTC (rev 142)
+++ pkg/NormqPCR/DESCRIPTION	2011-07-17 16:05:35 UTC (rev 143)
@@ -1,6 +1,6 @@
 Package: NormqPCR
-Version: 0.99.2
-Date: 2011-07-11
+Version: 0.99.3
+Date: 2011-07-15
 Title: Functions for normalisation of RT-qPCR data
 Description: Functions for the selection of optimal reference genes and the normalisation of real-time quantitative PCR data.
 Author: Matthias Kohl, James Perkins
@@ -12,3 +12,5 @@
 LazyLoad: yes
 LazyData: yes
 URL: http://qpcr.r-forge.r-project.org/
+Collate: allGenerics.R deltaCt.R selectHKs.R combineTechReps.R deltaDeltaCt.R stabMeasureM.R dealWithNA.R geomMean.R stabMeasureRho.R
+

Modified: pkg/NormqPCR/man/NormqPCR-package.Rd
===================================================================
--- pkg/NormqPCR/man/NormqPCR-package.Rd	2011-07-12 20:57:37 UTC (rev 142)
+++ pkg/NormqPCR/man/NormqPCR-package.Rd	2011-07-17 16:05:35 UTC (rev 143)
@@ -12,8 +12,8 @@
 \tabular{ll}{
 Package: \tab NormqPCR\cr
 Type: \tab Package\cr
-Version: \tab 0.99.2\cr
-Date: \tab 2011-07-11\cr
+Version: \tab 0.99.3\cr
+Date: \tab 2011-07-15\cr
 Depends: \tab R(>= 2.10.0), stats, RColorBrewer, Biobase, methods, ReadqPCR \cr
 License: \tab LGPL-3\cr
 LazyLoad: \tab yes \cr

Modified: pkg/QCqPCR/R/qcNormedData.R
===================================================================
--- pkg/QCqPCR/R/qcNormedData.R	2011-07-12 20:57:37 UTC (rev 142)
+++ pkg/QCqPCR/R/qcNormedData.R	2011-07-17 16:05:35 UTC (rev 143)
@@ -37,12 +37,12 @@
         if (writeToFile) jpeg(file = paste("mean.deltaCt.ordered.by.", hkg, ".jpg", sep = ""))
 
 
-        matplot(ord.plotFrame, type = "l", pch = seq(hkgs), lty = seq(hkgs), main = paste("Ordered By hkg ", hkg, sep = ""),xlab=paste("rank order of ",hkg))
-        legend(ceiling(1/2*length(featureNames(qPCRBatch))), min(ord.plotFrame,na.rm=TRUE)+5, hkgs, lty = seq(hkgs), col = seq(hkgs))
+        matplot(ord.plotFrame, type = "l", pch = seq(hkgs), lty = seq(hkgs), main = paste("Ordered By Reference Gene", gsub("\\.+.+","",hkg)),xlab=paste("rank order of",gsub("\\.+.+","",hkg)), ylab="delta Ct")
+        legend("bottomright", gsub("\\.+.+","",hkgs), lty = seq(hkgs), col = seq(hkgs))
         if (writeToFile) {
           dev.off()
         } else {
-          .wait()
+#          .wait()
         }
     }
     return(plotFrame)