A data frame contains 2 columns which correspond to start positions and end positions
value
A data frame contains values and other information
numeric.column
Which column in value data frame should be taken as y-value.
If it is not defined, the whole numeric columns in value will be taken.
sector.index
Pass to circos.points
track.index
Pass to circos.points
posTransform
Self-defined function to transform genomic positions, see posTransform.default for explanation
col
color of points. If there is only one numeric column, the length of col can be either one or number of rows of region.
If there are more than one numeric column, the length of col can be either one or number of numeric columns.
Pass to circos.points
pch
Type of points. Settings are similar as col. Pass to circos.points
cex
Size of points. Settings are similar as col. Pass to circos.points
...
Mysterious parameters
Details
The function is a low-level graphical function and usually is put in panel.fun when using circos.genomicTrackPlotRegion.
References
Gu, Z. (2014) circlize implements and enhances circular visualization in R. Bioinformatics.