alien_hunter

Interpolated Variable Order Motifs to identify horizontally acquired DNA

Install

All systems
curl cmd.cat/alien_hunter.sh
Debian Debian
apt-get install alien-hunter
Ubuntu
apt-get install alien-hunter
image/svg+xml Kali Linux
apt-get install alien-hunter
Windows (WSL2)
sudo apt-get update sudo apt-get install alien-hunter
Raspbian
apt-get install alien-hunter
Dockerfile
dockerfile.run/alien_hunter

alien-hunter

Interpolated Variable Order Motifs to identify horizontally acquired DNA

Alien_hunter is an application for the prediction of putative Horizontal Gene Transfer (HGT) events with the implementation of Interpolated Variable Order Motifs (IVOMs). An IVOM approach exploits compositional biases using variable order motif distributions and captures more reliably the local composition of a sequence compared to fixed-order methods. Optionally the predictions can be parsed into a 2-state 2nd order Hidden Markov Model (HMM), in a change-point detection framework, to optimize the localization of the boundaries of the predicted regions. The predictions (embl format) can be automatically loaded into Artemis genome viewer freely available at: http://www.sanger.ac.uk/Software/Artemis/.