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A directory of tools, AI models, datasets, and research resources for biotech, bioinformatics, and other scientific fields. Aggregated from curated GitHub awesome-lists, HuggingFace, bio.tools, Bioconductor, and more.
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3 of 9,831 resources
Minimizer-based Sparse de Bruijn Graph Construction. Minimizer based sparse de Bruijn Graph constructor. Homopolymer compress input sequences, pick syncmers from hpc-compressed sequences, connect syncmers with an edge if they are adjacent in a read, unitigify. Suggested input is PacBio HiFi/CCS reads. May or may not work with Illumina reads. Algorithmic details: https://www.biorxiv.org/content/10.1101/2020.09.18.303156v1.
PEPPER is a genome inference module based on recurrent neural networks that enables long-read variant calling and nanopore assembly polishing in the PEPPER-Margin-DeepVariant pipeline. This pipeline enables nanopore-based variant calling with DeepVariant.
a de novo genome assembler for long reads. Raven is a de novo genome assembler for long uncorrected reads.