Zefeng Zhu's repositories
pdb-profiling
Profiling Protein Structures from Protein Data Bank and integrate various resources.🏄♂️
naturegeorge
A special repository that serves for my public profile.
ProBioinformatics
This repository stores the codes that record the user's learning process of programming in computational biology.
sudathesis-bachelor
Naive LaTex Template For Soochow University Thesis (Bachelor Degree)
alphafold
Open source code for AlphaFold.
AnnoyingPDB
A list of PDB chain instances with unexpected errors.
awesome-equivariant-network
Paper list for equivariant neural network
biopython
Official git repository for Biopython (originally converted from CVS)
biozernike
Protein structure descriptors and alignment based on 3D Zernike moments.
ciftools-java
A Java library for handling text and binary CIF files.
DeepAccNet
Pytorch/Python3 implementation of DeepAccNet, protein model accuracy evaluator.
foldseek
Foldseek enables fast and sensitive comparisons of large structure sets.
gemmi
macromolecular crystallography library and utilities
HardProteins
Potential hard targets for protein structure prediction tasks.
naturegeorge.github.io
a personal github repo for my blog
NEMO
Learning protein structure with a differentiable simulator
pdb-profiling-API-Issues
A repository for API issues during the usage of pdb-profiling.
pdb-profiling-documentation
📘Documentation Repository of pdb-profiling
pdb-profiling.rs
🦀The Rust Implementation of pdb-profiling.
pdbfixer
PDBFixer fixes problems in PDB files
ProDy
A Python Package for Protein Dynamics Analysis
py_qcprot
A cython-based wrapper of the QCP C-code for RMSD calculation
pyRMSD
pyRMSD is a small Python package that aims to offer an integrative and efficient way of performing RMSD calculations of large sets of structures. It is specially tuned to do fast collective RMSD calculations, as pairwise RMSD matrices.
roma
RoMa: A lightweight library to deal with 3D rotations in PyTorch.
RoseTTAFold
This package contains deep learning models and related scripts for RoseTTAFold
strucmotif-search
Real-time structural motif searching in proteins using an inverted index strategy
trRosetta2
Repository for publicly available deep learning models developed in Rosetta community