SemiBin: Metagenomic Binning Using Siamese Neural Networks for short and long reads

Fork me on GitHub A dedicated semibin page with documentation is available at []( This page is just a summary. SemiBin is a tool for metagenomic binning with deep learning, handles both short and long reads. [![BioConda Install](]( [![Test Status](]( [![Documentation Status](]( [![License: MIT](]( If you use this software in a publication please cite: > Pan, S., Zhu, C., Zhao, XM. *et al.* [A deep siamese neural network improves metagenome-assembled genomes in microbiome datasets across different environments]( *Nat Commun* **13,** 2326 (2022). []( The self-supervised approach and the algorithms used for long-read datasets (as well as their benchmarking) are described in > Pan, S.; Zhao, XM; Coelho, LP. [SemiBin2: self-supervised contrastive learning leads to better MAGs for short- and long-read sequencing]( *bioRxiv preprint* 2023.01.09.523201; [](

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