a score inference server using protein folding models and FastAPI

Bioinformatics Course - Protein Module Practice

AI based protein modeling and design

KMer level tokenizer for DNA & Proteins sequences

A Shell, Python project.

Structural basis of DNaseX

🧪Predicting 🧬RNA 3D Structures 🚀ML

Benchmarking AlphaFold3 on CB513, TS115, CASP10

Configuration files for AlphaFold3 on TACC systems

STRAND: Structure Refinement of RNA-Protein Complexes via Diffusion

Shiny app for structural clustering of molecules based on RMSD and k-means. It allows users to upload .cif or .pdb files, explore MDS plots, and download representative structures from each cluster. Born from the need to cluster AlphaFold 3 output structures. Includes .cif/.pdb file converter

Molecular basis of nephrin

🧪Predicting 🧬RNA 3D Structures 🚀ML

AlphaFold3 GUI for easy creating covalent bonds, generating entities and exporting to JSON.

easyFold is an interactive, structure-aware platform for AlphaFold3 job management, visualization, and domain-level interpretation. It integrates confidence metrics (pLDDT, PAE), contact maps, and automated domain segmentation to enable deep, interpretable analysis of predicted protein structures.

Generate JSON files of Protein Complex for AlphaFold3

A Snakemake workflow for high-throughput AlphaFold 3 structure predictions

🧬 Integrates AlphaFold2/3 model confidence with ⚡ pyDock energy scoring to enhance protein–protein complex prediction accuracy. 📦 Includes workflows for generating diverse AF2-Multimer models, 🔍 computing pyDock energies, and 🔗 combining both via z-score normalization to produce robust, prioritized complex structures.

fold2go is a nextflow pipeline for in silico prediction of protein structures and interactions through various machine learning models.

A collection of helpful Python3 Jupyter notebooks for working with the AF3 server. My first repository so please be nice :)