Akash Bahai's repositories
rna_benchmarking
Benchmarking of deep-learning methods for tertiary RNA structure prediction
annotated_deep_learning_paper_implementations
🧑🏫 60 Implementations/tutorials of deep learning papers with side-by-side notes 📝; including transformers (original, xl, switch, feedback, vit, ...), optimizers (adam, adabelief, sophia, ...), gans(cyclegan, stylegan2, ...), 🎮 reinforcement learning (ppo, dqn), capsnet, distillation, ... 🧠
CLEAN
CLEAN: a contrastive learning model for high-quality functional prediction of proteins
crewAI
Framework for orchestrating role-playing, autonomous AI agents. By fostering collaborative intelligence, CrewAI empowers agents to work together seamlessly, tackling complex tasks.
DeepFRI
Deep functional residue identification
DeepPurpose
A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)
RhoFold
Open source code for RhoFold: Fast and Accurate RNA 3D Structure Prediction with Deep Learning.
RoseTTAFold2
RF2 with custom database locations
ESM-GearNet
ESM-GearNet for Protein Structure Representation Learning (https://arxiv.org/abs/2303.06275)
EVE
Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Joint collaboration between the Marks lab and the OATML group.
knowledgebase
recipes that save time
langchain-experiments
Building Apps with LLMs
llm-applications
A comprehensive guide to building RAG-based LLM applications for production.
localpdb
Python package to manage protein structures and their annotations
ProteinNPT
Official code repository for the paper "ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers"
protkit
A Unified Approach to Protein Engineering
pydicom
Read, modify and write DICOM files with python code
PymolFold
Protein folding in Pymol
quill
Quill - A Modern SaaS-Platform Built With Next.js 13
rna_comparison
Comparing computational RNA models with their native structures
RNAprediction
Scripts for becnhmarking RNA structure prediction tool on the NSCC
RoseTTAFold2NA
RoseTTAFold2 protein/nucleic acid complex prediction
snakemake
This is the development home of the workflow management system Snakemake. For general information, see
TransFun
Transformer for protein function prediction
viral-mutation
Language modeling of viral evolution