Direct coupling analysis software for protein and RNA sequences
☆62Jul 21, 2025Updated last year
Alternatives and similar repositories for pydca
Users that are interested in pydca are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Pseudo Likelihood Maximization for protein in Julia☆52May 15, 2025Updated last year
- A python module to compute contact map of proteins☆11Apr 3, 2026Updated 7 months ago
- Evolutionary couplings from protein and RNA sequence alignments☆315Apr 20, 2026Updated 6 months ago
- RNA Structural Bioinformatics Crash Course & Data Science in Python☆14Oct 19, 2022Updated 4 years ago
- Graph Learning of INTER-protein contacts☆11Feb 20, 2022Updated 4 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Inference of couplings in proteins and RNAs from sequence variation☆129Jan 21, 2023Updated 3 years ago
- Fully convolutional neural networks for protein residue-residue contact prediction☆44Mar 25, 2019Updated 7 years ago
- ☆20Feb 25, 2025Updated last year
- Mutation effects predicted from sequence co-variation☆75Sep 3, 2017Updated 9 years ago
- QRNAS: Quick Refinement of Nucleic Acid Structures☆18Apr 30, 2025Updated last year
- ProNA2020: System predicting protein-DNA, protein-RNA and protein-protein binding sites from sequence☆14Aug 7, 2020Updated 6 years ago
- Multivariate Gaussian Direct Coupling Analysis for residue contact prediction in protein families - Julia module☆24Jan 27, 2022Updated 4 years ago
- A Fully Automatic Method for Predicting Contact Maps of RNAs by Evolutionary Coupling Analysis☆10Nov 6, 2023Updated 2 years ago
- Deep residual neural network for protein contact/distance prediction developed by Xu group☆80Sep 13, 2020Updated 6 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Universal framework for physically based computational protein design☆36Oct 20, 2026Updated 2 weeks ago
- Generate Ramachandran plots for single PDB structure and as heatmap for MD trajectory☆11Apr 6, 2022Updated 4 years ago
- Boltzmann machine learning for Potts models of biological data☆13Jul 24, 2024Updated 2 years ago
- Protein Residue-Residue Contacts from Correlated Mutations predicted quickly and accurately.☆116Nov 8, 2023Updated 2 years ago
- Fork of matteofigliuzzi/bmDCA repository for Boltzmann-machine Direct Coupling Analysis (bmDCA).☆36Aug 23, 2020Updated 6 years ago
- pyKVFinder: Python-C parallel KVFinder☆40Oct 27, 2026Updated last week
- EvoEF + evolutionary profile for ddG_bind prediction☆15Oct 17, 2025Updated last year
- Centroid RNA package☆20Oct 12, 2020Updated 6 years ago
- Protein structure search based on embeddings☆13Oct 25, 2026Updated last week
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- DomainMapper is a parser for hmmscan full output files built centrally around ECOD domain definitions. Users can optimize DomainMapper's …☆13Dec 13, 2023Updated 2 years ago
- Jupyter Notebook showing how to plot FES, histograms and time-series data using Matplotlib.☆13Dec 21, 2020Updated 5 years ago
- A package for making tree-based visualizations for embedding vectors☆10Feb 6, 2023Updated 3 years ago
- A platform to do RNA science☆28Mar 7, 2021Updated 5 years ago
- A package to predict protein inter-residue geometries from sequence data☆221Sep 27, 2021Updated 5 years ago
- Demo of diffusion models #DDPM applied to molecular dynamics of small peptide☆14Jan 26, 2024Updated 2 years ago
- ☆16Aug 3, 2023Updated 3 years ago
- Code for "Protein Docking Model Evaluation by Graph Neural Networks"☆59May 12, 2023Updated 3 years ago
- Deep learning prediction of protein residue-residue distances☆23Jun 28, 2022Updated 4 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Protein Structure Archiver☆16Sep 10, 2025Updated last year
- A Python Package for Protein Dynamics Analysis☆561Oct 4, 2026Updated 3 weeks ago
- Python package to manage protein structures and their annotations☆46Mar 18, 2026Updated 7 months ago
- Visualization, comparison, and analysis of RNA secondary structures via a cross-platform GUI☆18May 19, 2025Updated last year
- A protein structure dataset that combines 3D atomic coordinates with biophysical and evolutionary properties for every atom in every "cle…☆40Jul 25, 2024Updated 2 years ago
- Contact map analysis for biomolecules; based on MDTraj☆50Oct 28, 2026Updated last week
- analyze 1D (e)ABF simulation in NAMD☆11Nov 12, 2018Updated 7 years ago