Quantify the total repeat space from Repeat Masker output in Mbp

Given a Repeat Masker annotation file this function quantifies the total repeat space in mega base pairs (Mbp).

totalRepeatSpace(file, repeat.type = "all")

Arguments

file	path to Repeat Masker output file.
repeat.type	type of element for which total repeat space shall be quantified. Options are: repeat.type = "all" include all types of repeats. repeat.type = "ltr" include only LTR retrotransposons.

See also

meta.seq.space

Author

Hajk-Georg Drost