ARPIP's Indel Visualizer

This repository contains the implementation of the arpip indel viewer which help the user to visualize the indel points inferred by ARPIP in the phylogenetic tree.

Getting Started

Before installation make sure that you have the Python version 3.8 or higher installed on your system. Need help?

Installation

To install the package you can simply download the repository and run the following command in the root directory.

Install the dependencies using this command:

pip3 install -r requirements.txt

Usage

The user can run the visualizer using the command line. For running the application use this command:

python ./main.py ./input.txt

To print a single site tree with indel points use this command:

python ./_cli.py --single-result 102  ./input.txt

for print all site tree with indel points use this command:

python ./_cli.py  ./input.txt             

for help use this command:

python ./_cli.py —help

Articles

• For more information on IndelPoints algorithm, see Jowkar et al.'s 2022 paper which can be located here.

Contributing

If you want to contribute to this repo simply submit a pull request!

Author

Gholam-Hossein Jowkar E-mail