To know how to create 'annotation' plots by using chromoMap, see the vignette.
and now let's see how the plot looks like. (hover over the image to see the magic).
I annotated 630 genes that were predicted as differentially expressed (using R limma package)in
pancreatic carcinoma condition (data from TCGA). The plot
gives you an idea about the distribution of DE genes throughout the genome. I thought it would be nice if the plot can
display additional information about these genes as another dimension. This is fulfilled by chromosome heatmaps. Check them
out, if you havn't already.
On hovering over each chromosome you will see chromosome information. While, hover over each annotated location
to view the annotated genes.
The Tooltip shows:
The genomic range for the selected location.
The total count of the genes annotated in the selected location.
Finally, the names of the genes annoted in the sequential order in which they are annoated in the selected location.
To know more about the plot (and tooltip information), see the package's vignette.