hmmerCleanOverlap {micropan} | R Documentation |
Removing overlapping hits from HMMER3 scans
Description
Removing hits to avoid overlapping HMMs on the same protein sequence.
Usage
hmmerCleanOverlap(hmmer.tbl)
Arguments
hmmer.tbl |
Details
When scanning sequences against a profile HMM database using hmmerScan
, we
often find that several patterns (HMMs) match in the same region of the query sequence, i.e. we have
overlapping hits. The function hmmerCleanOverlap
will remove the poorest overlapping hit
in a recursive way such that all overlaps are eliminated.
The input is a tibble
of the type produced by readHmmer
.
Value
A tibble
which is a subset of the input, where some rows may have been deleted to
avoid overlapping hits.
Author(s)
Lars Snipen and Kristian Hovde Liland.
See Also
Examples
# See the example in the Help-file for dClust.
[Package micropan version 2.1 Index]