BioinfoMachineLearning

BioinfoMachineLearning's repositories

cryoppp

The programs of creating cryo-EM particle picking datasets

Language:PythonMIT78 1 4

DeepInteract

A geometric deep learning framework (Geometric Transformers) for predicting protein interface contacts. (ICLR 2022)

Language:PythonGPL-3.064 2 19

The software system of improving AlphaFold2- and AlphaFold-Multimer-based protein tertiary & quaternary structure prediction. It was developed by the Bioinformatics and Machine Learning Lab at the University of Missouri. It was blindly tested in CASP15 and ranked among the best server predictors in 2022. It improves AlphaFold's accuracy by 5-10%.

Language:Python30 3 3

ATOMRefine

3D equivariant graph transformer for all-atom refinement of protein tertiary structures

Language:PythonMIT27 4 8

EnQA

A 3D-equivariant neural network for protein structure accuracy estimation

Language:ShellGPL-3.019 2 2

DeepRefine

A geometric deep learning method for refining and assessing protein complex structures.

Language:PythonGPL-3.015 2 3

DProQ

Deep learning prediction of protein complex structure quality

Language:PythonMIT6 2 4

MULTICOM_qa

Evaluate the quality of protein multimer structure models

Language:Python4 2 2

BML_HiC_Data_Analysis

A set of tools for Hi-C data analysis developed by Bioinformatics and Machine Learning Lab

Language:PythonGPL-3.02 10

DeepCryoPicker

This is the python implementation of the original DeepCryoPicker for picking single protein particles in cryo-EM images.

Language:Jupyter NotebookMIT1 10

FunBench

The programs and data for benchmarking protein function site prediction methods

Language:Jupyter NotebookMIT1 10

GD-multimer

Stochastic gradient descent method for reconstructing protein multimer structures from inter-chain contacts/distances

Language:PythonApache-2.0010

TransPro

1D transformer for predicting protein structural features (secondary structure, solvent accessibility)

Language:Python010

dagmsa

DAGMSA: Direct Acyclic Graph-based Multiple Sequence Alignments (MSA) for Protein Multimer Structure Prediction

Language:ParrotMIT020

openfold-bugfixes

Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2

Language:PythonApache-2.0000