GeneFuse vRust

A Rust ported GeneFuse with improved performance.

This program is a Rust porting version based on GeneFuse 0.8.0

How to use: Build from source

1. If you don't have Rust, install it.
2. Build it with the below command on the root dir of this repo:

cargo build --release

The command will make a binary in {repo_root}/target/release/genefuse

3. Run genefuse

target/release/genefuse

Notes: Some modifications in this version

• Added read name as a criteria to sort Match objects. (The original codes can yield different unique read count per run.)
• It can accept a file having a list of fusion csvs. If you give it a file like that instead of a single csv, it outputs report files per fusion csv file.
• Parallelized part of matcher::makeIndex() method to increase performance.
• Some multi-threading codes were modified to be used in Rust.

Performance test

• In a test, this version's running time was 6.62x and it used 105% memory.
• Details

Multiple csv path file Example

./EGFR_KRAS.csv
./TP53_EGFR.csv

For more information about this program, please see the original repository.