This function computes distances between adjacent genomic regions, grouped by chromosome. Useful for visualizing clustering or dispersion of genomic features.
genomic_dist(region, mode = NULL)A data frame with an additional dist column.
A data frame with at least 3 columns: chromosome, start, and end.
How to assign distance for intermediate regions: one of "min",
"max", "mean", "left", or "right".
The distance between two adjacent regions is calculated as the number of
bases between the end position of the upstream region and the
start position of the downstream region. If two regions overlap or are
adjacent (<=1 bp apart), the distance is set to 0. The resulting distance
is assigned to each region according to the selected mode:
"left": assign the distance to the upstream region
"right": assign to the downstream region
"min" / "max" / "mean": for intermediate regions, calculate the
minimum, maximum, or average of the distances to neighboring regions