Definition of graphical parameters to customize the global appearance of the resulting piecharts of genome annotations.
- High/low detail is useful to switch between two lists of genomic features to characterize the peaks:
* Distal promoters: the region between 2.5 Kb and 0.5 Kb upstream of the TSS of genes
* Proximal promoters: the region between the TSS and 0.5 Kb upstream of the TSS of genes
* 5'UTR and 3'UTR: untranslated regions upstream/downstream of transcripts (UTR exons)
* CDS: protein coding sequence part of transcripts (coding exons)
* Introns: spliced part of the genes that is not included into the transcripts
* Intergenic regions: genomic regions that do not belong to any of the previous classes
* Promoter region: the region between 2.5 Kb upstream of the TSS and the TSS
* Intragenic: exons and introns of genes
* Intergenic: genomic regions that are not classified as promoters or intragenic
Depending on the size of peaks, those elements can overlap with more than one class of genomic
region. Thus, the total number of peaks shown in the title of the piechart will reflect these cases
(this value will be equal or higher than the actual number of peaks provided by the user).
The corresponding spie chart to represent how significant are the results on the particular genome will
be generated only when the High detail option is active. The circular grid can be optionally hidden.
- The color to depict each class of genomic region in the pie charts can be selected by the user
Colors must be defined in the R software coloring scheme as shown in the following table