alfy: ALignment-Free local homologY

• Description: Fast detection of local homologies between a query sequence and a set of subject sequences, as explained further here.
• Authors: Mirjana Domazet-Loso and Bernhard Haubold
• License: Gnu GPL
• Contact: Mirjana.Domazet-Loso@fer.hr or haubold@evolbio.mpg.de

Make alfy

The program alfy depends on the divsufsort library. On Debian-like system we can install it with

sudo apt install libdivsufsort-dev

On macOS we can use

brew install libdivsufsort

Then we can run

make

to make the executable alfy in the directory bin.

Test alfy

The command

make test

downloads the test data into the directory data and tests alfy.

Get Tutorial Data

The data used in the tutorial is the same as the data used for testing. It can be downloaded separately by running

make data

which generates the directory data containing the data files.