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structure-prediction

Here are 29 public repositories matching this topic...

ColabFold

sokrypton / ColabFold

Making Protein folding accessible to all!

bioinformatics protein-structure structure-prediction multiple-sequence-alignment

Updated Oct 17, 2024
Jupyter Notebook

XuezheMax / NeuroNLP2

Deep neural models for core NLP tasks (Pytorch version)

machine-learning natural-language-processing deep-neural-networks deep-learning pytorch named-entity-recognition sequence-labeling dependency-parsing structure-prediction core-nlp syntactic-parsing

Updated Feb 1, 2022
Python

Urinx / alphafold_pytorch

An implementation of the DeepMind's AlphaFold based on PyTorch for research

deep-learning contact-prediction structure-prediction protein-structure-prediction pytorch-implementation alphafold casp13

Updated Jan 23, 2021
Python

debbiemarkslab / EVcouplings

Evolutionary couplings from protein and RNA sequence alignments

protein structure-prediction 3d-structure protein-complexes

Updated Sep 27, 2024
Jupyter Notebook

Genentech / equifold

Official code repository for EquiFold: Protein Structure Prediction with a Novel Coarse-Grained Structure Representation

machine-learning proteins structural-biology structure-prediction

Updated Jan 8, 2023
Python

LucaAngioloni / ProteinSecondaryStructure-CNN

Protein Secondary Structure predictor using Convolutional Neural Networks

machine-learning deep-learning pdb chain protein-structure keras cnn structure-prediction protein-prediction cullpdb

Updated Jul 15, 2023
Python

zjunlp / Generative_KG_Construction_Papers

[EMNLP 2022] Generative Knowledge Graph Construction: A Review

Updated Jul 11, 2023

Lattice-Automation / seqfold

nucleic acid folding

dna rna folding rna-structure-prediction structure-prediction rna-folding dna-structure-prediction dna-folding

Updated Aug 3, 2024
Python

BackofenLab / RNA-Playground

Visualize the inner workings of RNA bioinformatics algorithms for structure prediction, interaction prediction and sequence alignment.

bioinformatics algorithm teaching alignment rna nussinov structure-prediction

Updated Feb 28, 2024
JavaScript

Ramprasad-Group / PSP

PSP is a python toolkit for predicting atomic-level structural models for a range of polymer geometries.

polymer structure-prediction vasp-poscar smiles-strings lammps-input oligomer initial-geometries autonomous-model-generator amorphous-model crystal-model infinite-polymer-chain loop-oligomer

Updated Jul 5, 2024
Jupyter Notebook

okkevaneck / prospr

Prospr is a universal toolbox for protein structure prediction within the HP-model. The Python package is based on a C++ core, which gives Prospr its high performance. The C++ core is made available as a separate zip file to facilitate high-performance computing applications. The package comes with many prediction algorithms and datasets to use.

python package bioinformatics cpp toolbox protein high-performance-computing datasets computational-science structure-prediction protein-folding protein-structure-prediction

Updated Sep 3, 2024
C++

zhubonan / airsspy

Python bindings for the `buildcell` program for Ab Initio Random Structure Searching (AIRSS)

materials-science structure-prediction airss

Updated May 31, 2024
Python

zjunlp / SPEECH

[ACL 2023] SPEECH: Structured Prediction with Energy-Based Event-Centric Hyperspheres

nlp machine-learning natural-language-processing physics speech pytorch information-extraction ie event-extraction structure-prediction energy-model acl2023

Updated Dec 22, 2023
Python

AstraBert / proteinviz

Your open-source alternative to AlphaFold3🚀

open-source bioinformatics ai biology structure-prediction protein-folding huggingface-spaces

Updated Jun 20, 2024
Python

xkianteb / leaqi

Active Imitation Learing with Noisy Guidance

natural-language-processing reinforcement-learning imitation-learning structure-prediction learning-to-search

Updated May 29, 2020
Python

StanIsAdmin / PyProt

A set of libraries for aligning, profiling, and predicting the structure of proteins

protein alignment profiling amino-acids substitutions score-matrix structure-prediction

Updated Nov 1, 2017
Python

OneAngstrom / DeepTrajectory

A deep learning method that identifies improved protein conformational states in trajectory data from refinement simulations

deep-learning tensorflow structure-prediction temporal-learning casp protein-refinement

Updated Mar 3, 2018
Python

dillondaudert / pssp_lstm

Recurrent neural network implementations for protein secondary structure prediction and language models

deep-neural-networks deep-learning tensorflow paper structure jupyter-notebook prediction python3 recurrent-neural-networks protein lstm rnn pretrained-models language-models unsupervised-learning structure-prediction amino-acid-sequence secondary

Updated Sep 18, 2018
Python

volvox292 / mass2smiles

deep learning based prediction of structures and functional groups from MS/MS spectra

deep-learning mass-spectrometry structure-prediction smiles-strings

Updated Jan 22, 2024
Jupyter Notebook

mdkma / DICE

[ACL'23 main] DICE: Data-Efficient Clinical Event Extraction with Generative Models

pytorch information-extraction generative-model event-extraction clinical-research structure-prediction clinical-data clinical-information-extraction

Updated Jul 10, 2023

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