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Bioconductor Changlog.
Fri, 18 Jul 2008
GGtools
added snpdepth class
additional support for gene set on lhs of formula
the filtered gwSnpScreen tasks are now working
affyPara
affyPara 1.1.7 (build 17. July 2008)
- Parallelized partial loess normalization with permutation added
- all Package building errors fixed
- Package cleaning
GGBase
add snpdepth class to disambiguate!
added class export filteredMultiGw..
ShortRead
corrected nasty bug in pileup.c
GenomeGraphs
Forgot to add the Overlay.R file :)
According to a number of patches from Elizabeth Purdom (many thanks!) The following changes have been made:
*.) drawOverlay : changed added to Overlay.R -- modified code to be TextOverlay, RectangleOverlay. Additional refactoring should occur where we remove arguments/member-variables from TextOverlay which are irrelevant. Added helper functions of the form:
to <- makeTextOverlay(text = "Some Text!", xpos = .5, ypos = .5, coords = "absolute")
*.) Added the TextOverlay class.
*.) Added fill, and color arguments to the RectangleOverlay to support the coloring of the rectangle lines and the innards separately.
*.) Added showDisplayOptions, which either takes an object, or a character string and prints out the DisplayPars that the object expects.
*.) Added method drawGD for Segmentation class
*.) .drawSegments now can do vectorized coloring and different lwd for elements of the Segmentation list.
*.) Added convenience function segmentation to construct segmentation objects more readily -- this tries to make that clunky list format less of a pain.
*.) Made a number of tweaks for better displaying the legend. Added convenience function for making legends
*.) fixed a display bug in Transcript
*.) added labelRot, labelColor, and labelCex for the gdPlot function.
[/GenomeGraphs] permanent link
BiocCaseStudies
updated package list
[/BiocCaseStudies] permanent link