#genomics #bioinformatics #bed #set #interval

app gia

A tool for set theoretic operations of genomic intervals

7 releases

0.1.22 Nov 20, 2023
0.1.21 Sep 29, 2023

#216 in Biology

Download history 12/week @ 2023-10-29 1/week @ 2023-11-05 8/week @ 2023-11-12 42/week @ 2023-11-19 29/week @ 2023-11-26 4/week @ 2023-12-03 1/week @ 2023-12-10 7/week @ 2023-12-17 14/week @ 2023-12-24 9/week @ 2024-01-07 2/week @ 2024-01-21 22/week @ 2024-01-28 8/week @ 2024-02-04 31/week @ 2024-02-11

63 downloads per month

MIT license

155KB
4.5K SLoC

gia: Genome Interval Arithmetic

MIT licensed actions status Crates.io

Summary

gia is a free and open-source command-line tool for highly efficient and scalable set operations on genomic interval data.

It is inspired by the open source command-line tools bedtools and bedops and aims to be a drop-in replacement to both.

gia is written in rust and distributed via cargo. It is a command-line tool built on top of bedrs, a separate and abstracted genomic interval library.

Installation

gia is distributed using the rust package manager cargo.

cargo install gia

You can validate the installation by checking gia's help menu:

gia --help

Installing cargo

You can install cargo by following the instructions here

Usage

You can see more detailed usage for each subcommand on the documentation site.

Issues and Contributions

gia is a work-in-progress and under active development by Noam Teyssier.

If you are interested in building more functionality or want to get involved please don't hesitate to reach out!

Please address all issues to future contributors.

Dependencies

~10–17MB
~161K SLoC