hiAnnotator contains set of functions which allow users to
annotate a GRanges object with custom set of annotations. The
basic philosophy of this package is to take two GRanges
objects (query & subject) with common set of seqnames (i.e.
chromosomes) and return associated annotation per seqnames and rows
from the query matching seqnames and rows from the subject (i.e.
genes or cpg islands). The package comes with three types of annotation
functions which calculates if a position from query is: within a feature,
near a feature, or count features in defined window sizes. Moreover, each
function is equipped with parallel backend to utilize the foreach package.
In addition, the package is equipped with wrapper functions, which finds
appropriate columns needed to make a GRanges object from a
common data frame.