NEWS
affycoretools 1.52.0
Significant user-visible changes
- +Changed plotting for makeImages to use ggplot2 rather than lattice
+Added a new function, vennInLine, intended to allow for placement of
Venn diagrams in Rmarkdown-derived HTML documents, particularly those
that use the BiocStyle package for formatting. The Venn diagrams
contain clickable links that will open HTML tables containing results
for the genes that are found within that cell of the diagram.
affycoretools 1.50.0
Significant user-visible changes
- +Converted runRomer and outputRomer to S4, in the process re-factoring
they now accept either an ExpressionSet and MArrayLM object (for
Affymetrix microarray analyses), a DGEList and DGEGLM object (for
RNA-Seq analysis using edgeR) or an EList and MArrayLM object (for
either Agilent one-color microarray analysis or limma-voom RNA-Seq
analysis).
affycoretools 1.43.1
Significant user-visible changes
- +Added new functionality to automatically annotate ExpressionSets,
using either ChipDb (e.g., hugene10sttranscriptcluster.db) packages,
pdInfo (e.g., pd.hugene.1.0.v1) packages, or user-supplied
data.frames.