Hyenadna

CD-HIT — fast sequence clustering and redundancy reduction for protein and nucleotide sequences. Clusters FASTA sequences at a user-defined identity threshold to remove redundancy from databases. Prov

2 shared topics

Evo — genomic foundation model for DNA sequence modeling at single-nucleotide resolution. Uses StripedHyena architecture (7B parameters) trained on 2.7M prokaryotic and phage genomes (OpenGenome datas

2 shared topics

GATK VQSR (Variant Quality Score Recalibration) — machine learning-based variant filtering for GATK Best Practices germline pipelines. Trains a Gaussian mixture model on truth/training resource datase

2 shared topics

Geneformer — transformer-based foundation model pretrained on ~30 million single-cell transcriptomes for context-specific gene network analysis. Supports fine-tuning for cell type classification, gene

2 shared topics

Herro — haplotype-aware error correction for Oxford Nanopore long reads using deep learning. Corrects ONT simplex reads to Q30+ accuracy while preserving haplotype information for diploid assembly. Us

2 shared topics