Moo-cow

transformers

🤗 Transformers: State-of-the-art Machine Learning for Pytorch, TensorFlow, and JAX.

ChatGPT

🔮 ChatGPT Desktop Application (Mac, Windows and Linux)

MMseqs2

MMseqs2: ultra fast and sensitive search and clustering suite

openbabel

Open Babel is a chemical toolbox designed to speak the many languages of chemical data.

evo

Biological foundation modeling from molecular to genome scale

gnina

A deep learning framework for molecular docking

hh-suite

Remote protein homology detection suite.

opentrons

Software for writing protocols and running them on the Opentrons Flex and Opentrons OT-2

smiles-transformer

Original implementation of the paper "SMILES Transformer: Pre-trained Molecular Fingerprint for Low Data Drug Discovery" by Shion Honda et al.

GetOrganelle

Organelle Genome Assembly Toolkit (Chloroplast/Mitocondrial/ITS)

CLEAN

CLEAN: a contrastive learning model for high-quality functional prediction of proteins

metaGEM

:gem: An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data

Helixer

Using Deep Learning to predict gene annotations

Awesome-Biomolecule-Language-Cross-Modeling

Awesome-Biomolecule-Language-Cross-Modeling: a curated list of resources for paper "Leveraging Biomolecule and Natural Language through Multi-Modal Learning: A Survey"

wyGPT

Wang Yi's GPT solution

CarsiDock

Official repo of "CarsiDock: a deep learning paradigm for accurate protein–ligand docking and screening based on large-scale pre-training" proposed by CarbonSilicon AI.

TaxDiff

The official code for "TaxDiff: Taxonomic-Guided Diffusion Model for Protein Sequence Generation"

UniKP

ProtSSN

Fusion of protein sequence and structural information, using denoising pre-training network for zero-shot protein engineering (eLife 2024).

RabbitTClust

RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches

ProMEP

Zero-shot prediction of mutation effects on protein function with multimodal deep representation learning

LRSDAY

LRSDAY: Long-read Sequencing Data Analysis for Yeasts

AnnoPRO

Feature map and function annotation of Proteins

BGI-Full-Length-RNA-Analysis-Pipeline

Full-Length RNA Analysis pipeline developted by BGI RD group.

ALLHiC_components

Some components that speed up and reduce resource cost for original ALLHiC

HANA

High-performance Automated Next-generation AllHiC

khaper

opentrons-colony-counting-picking

Colony counting and picking functionality for OpenTrons

nf-core-isoseq

Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric (FLNC) sequences and produce a bed annotation.

CatPred

Machine Learning models for in vitro enzyme kinetic parameter prediction