The ChromHeatMap package can be used to plot genome-wide data (e.g. expression, CGH, SNP) along each strand of a given chromosome as a heat map. The generated heat map can be used to interactively identify probes and genes of interest.
|Author||Tim F. Rayner|
|Date of publication||None|
|Maintainer||Tim F. Rayner <firstname.lastname@example.org>|
ALLs.chr22: Chromosome 22 subset of ALL data for ALL1/AF4 and E2A/PBX1
chrdata: The ALLs.chr22 ExpressionSet, reformatted as a ChrStrandData...
chrHeatMap: Plot ChrStrandMatrix objects as heat maps along a chromosome
ChrMapPlot-class: Class containing a mapping between plot location and probe or...
chrNames: Retrieve chromosome names from an object.
ChrStrandData-class: Class to contain data associated with chromosome coordinates...
ChrStrandMatrix-class: Class to contain data associated with genome locations for a...
createChrMatrix: Generate chromosome-based subset matrices from the mapped...
cytobands: Cytoband location information
drawMapDendro: Draw a heatmap and dendrogram for a strand-specific data...
grabChrMapProbes: Identify the probes or genes plotted using plotChrMap
makeChrStrandData: Map a data matrix onto chromosome coordinates
makeChrStrandData-methods: Map a data matrix onto chromosome coordinates
makeRangedDataList: Plot expression data as tracks in the UCSC genome browser
plotChrMap: Plot data as an annotated heat map along a chromosome
stains: Cytoband display information
strandName: Retrieve strand information from a ChrStrandMatrix object.