A Foundation Model for Multitask Genome-Scale SNP Analysis

Neural Collaborative Filtering

CNN models for antibiotic resistance prediction in M. tuberculosis genomes. From Green & Yoon et al (forthcoming)

Bi-Directional Equivariant Long-Range DNA Sequence Modeling

[NeurIPS 2024] Simple and Effective Masked Diffusion Language Model

This is the official codebase for methylGPT : a foundation model for the DNA methylome.

A Python Tool for Benchmarking Ontological Classification Methods

ARIBA-based pipeline for genotypic prediction of AMR from whole-genome sequences of Enterococcus faecium

Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.

A declarative interactive genomics visualization library for Python.

Convolutional autoencoder for genotype data

A simple neural network for calling het-/hom-variants from alignments of single molecule reads to a reference

A massively parallel, high-level programming language

A simple way to calibrate your neural network.

A Set of R Tools for Splitting up Chromosomes into Regions of High and Low Recombination

Frequently used commands in Bioinformatics

GRUD is a genotype imputation based on deep learning algorithms

STICI source code

CUDA-based KING relatedness estimation

The Book of Statistical Proofs

Smart and Accurate Polishing of Phased Haplotypes Integrating Read Enhancements (SAPPHIRE)

Github Pages template based upon HTML and Markdown for personal, portfolio-based websites.

Carbon Language's main repository: documents, design, implementation, and related tools. (NOTE: Carbon Language is experimental; see README)

Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls