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ablang

AbLang: A language model for antibodies

ablm

Protein language model customized for antibodies

abstar

VDJ assignment and antibody sequence annotation. Scalable from a single sequence to billions of sequences.

aizynthfinder

A tool for retrosynthetic planning

antiberty

Antibody-specific masked language model

antiberty-pytorch

An unofficial re-implementation of AntiBERTy, an antibody-specific protein language model, in PyTorch.

appliedstats

:bar_chart: Methods of Applied Statistics Course Textbook Repository

auto-sklearn

Automated Machine Learning with scikit-learn

auto3d_pkg

awesome-bioinformatics

A curated list of awesome Bioinformatics libraries and software.

aws-batch-arch-for-protein-folding

aws-batch-architecture-for-alphafold

bert-loves-chemistry

bert-loves-chemistry: a repository of HuggingFace models applied on chemical SMILES data for drug design, chemical modelling, etc.

bertmhc

MHC-peptide class II interaction prediction, binding, presentation

bio-lm

We evaluate many models used for biomedical and clinical nlp tasks, and train new models that perform much better.

bioimage.io

Website for the BioImage Model zoo -- a model zoo for bioimage analysis.

biophi

BioPhi is an open-source antibody design platform. It features methods for automated antibody humanization (Sapiens), humanness evaluation (OASis) and an interface for computer-assisted antibody sequence design.

biotransfer

Machine learning-driven antibody design

bookmark

cellprofiler

An open-source application for biological image analysis

chatdev

Create Customized Software using Natural Language Idea (through LLM-powered Multi-Agent Collaboration)

chemcpa

Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.

core-bioimage-io-python

Python libraries for loading, running and packaging bioimage.io models

cpa

The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell level. CPA performs OOD predictions of unseen combinations of drugs, learns interpretable embeddings, estimates dose-response curves, and provides uncertainty estimates.

deep-learning-models

Keras code and weights files for popular deep learning models.

deep-storm

Official implementation of Deep-STORM for dense 2D localization microscopy

deep-synthesis

A deep learning framework for predicting chemical synthesis

deepchem

Democratizing Deep-Learning for Drug Discovery, Quantum Chemistry, Materials Science and Biology

deepliif

Deep Learning Inferred Multiplex ImmunoFluoroscence for IHC Quantification

deepmd-kit

A deep learning package for many-body potential energy representation and molecular dynamics