# Grapics related functions for Bioconductor

## Documentation for package `geneplotter' version 1.6.1

## User Guides and Package Vignettes

Read overview or browse directory.

## Help Pages

alongChrom | A function for plotting expression data from an exprset for a given chromosome.
amplicon.plot | Create an amplicon plot
buildACMainLabel | A function for plotting expression data from an exprset for a given chromosome.
cColor | A function for marking specific probes on a cPlot.
closeHtmlPage | Open and close an HTML file for writing.
cPlot | A plotting function for chromosomes.
cScale | A function for mapping chromosome length to a number of points.
cullACXPoints | A function for plotting expression data from an exprset for a given chromosome.
dChip.colors | A function to get the Red-Blue color scheme used by dChip
defMapFun | A function to plot a graph colored by expression data
densCols | Scatterplots with smoothed densities color representation
dispACXaxis | A function for plotting expression data from an exprset for a given chromosome.
doACCumPlot | A function for plotting expression data from an exprset for a given chromosome.
doACImagePlot | A function for plotting expression data from an exprset for a given chromosome.
doACLocalPlot | A function for plotting expression data from an exprset for a given chromosome.
doACMatPlot | A function for plotting expression data from an exprset for a given chromosome.
emptyACPlot | A function for plotting expression data from an exprset for a given chromosome.
eset133a | A dataset of class exprSet
fixACPhysPoints | A function for plotting expression data from an exprset for a given chromosome.
getACClosestPos | A function for plotting expression data from an exprset for a given chromosome.
getACDataEnv | A function for plotting expression data from an exprset for a given chromosome.
getACExprs | A function for plotting expression data from an exprset for a given chromosome.
getACGeneSyms | A function for plotting expression data from an exprset for a given chromosome.
getACPlotLabs | A function for plotting expression data from an exprset for a given chromosome.
getACStrandVals | A function for plotting expression data from an exprset for a given chromosome.
GetColor | A function to get the Red-Blue color scheme used by dChip
getPlotExpressionColors | A function to plot a graph colored by expression data
greenred.colors | A function to get the Red-Blue color scheme used by dChip
highlightACDups | A function for plotting expression data from an exprset for a given chromosome.
identifyLines | A function for identifying sample lines on an alongChrom() plot.
imageMap | Write an HTML IMG tag together with a MAP image map.
imageMap,matrix,connection,list,character-method | Write an HTML IMG tag together with a MAP image map.
imageMap,matrix-method | Write an HTML IMG tag together with a MAP image map.
imageMap-methods | Write an HTML IMG tag together with a MAP image map.
limitACXRange | A function for plotting expression data from an exprset for a given chromosome.
make.chromOrd | Make a chromOrd object
Makesense | Produce Smoothed Sense/Anti-sense For All Chromosomes
Makesense,exprSet-method | Produce Smoothed Sense/Anti-sense For All Chromosomes
Makesense,matrix-method | Produce Smoothed Sense/Anti-sense For All Chromosomes
openHtmlPage | Open and close an HTML file for writing.
plotChr | Plot Smoothed Sense/Anti-sense of Specified Chromosomes
plotExpressionGraph | A function to plot a graph colored by expression data
saveeps | Save the contents of the current graphics device to a file
savepdf | Save the contents of the current graphics device to a file
savepng | Save the contents of the current graphics device to a file
savetiff | Save the contents of the current graphics device to a file
scaleACData | A function for plotting expression data from an exprset for a given chromosome.
smoothScatter | Scatterplots with smoothed densities color representation