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README.md

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 MetaEuk is a modular toolkit designed for large-scale gene discovery and annotation in eukaryotic metagenomic contigs. MetaEuk combines the fast and sensitive homology search capabilities of [MMseqs2](https://github.com/soedinglab/MMseqs2) with a dynamic programming procedure to recover optimal exons sets. It reduces redundancies in multiple discoveries of the same gene and resolves conflicting gene predictions on the same strand. MetaEuk is GPLv3-licensed open source software that is implemented in C++ and available for Linux and macOS. The software is designed to run efficiently on multiple cores.