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FragGeneScanRs: better and faster gene prediction for short reads

Van der Jeugt, F.; Dawyndt, P.; Mesuere, B.

2021-08-11 bioinformatics
10.1101/2021.08.11.455929 bioRxiv
Show abstract

FragGeneScanRs is a better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads. Its command line interface is backward compatible and adds extra features for more flexible usage. Compared to the original C implementation, shotgun metagenomic reads are processed up to 22 times faster using a single thread, with better scaling for multithreaded execution. Availability and implementationThe Rust code of FragGeneScanRs is freely available from GitHub under the GPL-3.0 license, with instructions for installation, usage and other documentation.

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"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.