Scalable annotated de Bruijn graphs for DNA indexing, alignment, and assembly

Making Protein Design accessible to all via Google Colab!

A lightweight reimplementation of some of the algorithms in the MEME suite in Python.

🌸 A command-line fuzzy finder

PyTorch Lightning + Hydra. A very user-friendly template for ML experimentation. ⚡🔥⚡

A Python library for fast and easy access to genomic resources such as sequence, data tracks, and annotations

Hypernetworks that adapt LLMs for specific benchmark tasks using only textual task description as the input

Coreness study on synesthetic subjects. Project collaboration PICNIC/NERV labs.

A suite of tools for machine learning with genomics data

Official implementation of "Hydra: Bidirectional State Space Models Through Generalized Matrix Mixers"

A collection of awesome bio-foundation models, including protein, RNA, DNA, gene, single-cell, and so on.

Circular visualization in Python (Circos Plot, Chord Diagram, Radar Chart)

Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2

Explore a comprehensive collection of basic theories, applications, papers, and best practices about Large Language Models (LLMs) in genomes.

Logan Unitigs and Contigs

Using Deep Learning to predict gene annotations

Extension that shows old prices and creation date of items on LeBonCoin in Firefox and chrome browsers

Cython bindings and Python interface to the MEME suite, a collection of tools for the analysis of sequence motifs.

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

Repository for StripedHyena, a state-of-the-art beyond Transformer architecture

Run and manage background processes

[NeurIPS 2024] Simple and Effective Masked Diffusion Language Model

The tools for your .cool's

sequence-based prediction of multiscale genome structure from kilobase to whole-chromosome scale

A software tool to identify dispersed epigenetic regions from ChIP-seq data