Nucleotide Transformer

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

3 shared topics • 1 shared operation

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

3 shared topics • 1 shared operation

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 • 1 shared operation

JAX — Google's high-performance numerical computing library combining NumPy API with automatic differentiation (grad, value_and_grad), just-in-time XLA compilation (jit), automatic vectorization (vmap

2 shared topics • 1 shared operation

Loom — HDF5-based file format and Python library (loompy) for storing and accessing large single-cell RNA-seq datasets. Supports sparse/dense matrices, row attributes (genes/features), column attribut

2 shared topics • 1 shared operation