#bioinformatics #rna #secondary-structure

bin+lib phylofold

PhyloFold Program, which Predicts RNA Single Secondary Structures to Incorporate Phylogeny among Homologs

3 releases

Uses old Rust 2015

0.1.2 Mar 10, 2020
0.1.1 Mar 9, 2020
0.1.0 Mar 4, 2020

#6 in #secondary-structure

25 downloads per month
Used in phyloalifold

MIT license

38KB
727 lines

PhyloFold Program, which Predicts RNA Single Secondary Structures to Incorporate Phylogeny among Homologs

Installation

This project has been written in mainly Rust, a systems programming language. So first, you need to install the Rust compiler, package manager, and standard library. Visit the Rust website to see more about this language. You can install these 3 components with 1 line as follows:

$ curl https://sh.rustup.rs -sSf | sh

The above installation is done by Rustup, so you can easily switch a compiler to use. Now you can install the PhyloFold program as follows:

$ cargo install phylofold

Check if this program has been installed properly as follows:

$ phylofold # Its available command options will be displayed.

After the test, the figures shown in the paper of the PhyloFold program can be reproduced:

$ cd src
$ ./run_all.py # Install python packages required to the reproduction. Saved figures will appear at the "../assets/images" directory.

Author

Heartsh

License

Copyright (c) 2018 Heartsh
Licensed under the MIT license.

Dependencies

~27MB
~198K SLoC