# Package org.snpeff.overlap

package org.snpeff.overlap

Related Packages
Package
Description
org.snpeff
Classes
Class
Description
BasesChangeCounter
Counts how many bases changed, given an XOR between two longs
Overlap<S extends BinarySequence>
Calculates the best overlap between two sequences Note: An overlap is a simple 'alignment' which can only contain gaps at the beginning or at the end of the sequences.
OverlapDnaSeq
SequenceRotator
Rotates a binary packed sequence WARNING: We only rotate up to Coder.basesPerWord() because after that the sequences are the same (with an integer offset) NOTE: Left rotation 'n' is the same as a right rotation 'Coder.basesPerWord() - n'