jertubiana / PGM
Probabilistic Graphical Models in Python3.
☆24Updated last year
Related projects ⓘ
Alternatives and complementary repositories for PGM
- Learning Protein Constitutive Motifs from Sequence Data: RBM toolbox☆20Updated 5 years ago
- ☆34Updated 4 months ago
- Paratope Prediction using Deep Learning☆59Updated last year
- Learning with uncertainty for biological discovery and design☆33Updated last year
- Epistatic Net is an algorithm which allows for spectral regularization of deep neural networks to predict biological fitness functions (e…☆17Updated 3 years ago
- PDNET: A fully open-source framework for deep learning protein real-valued distances☆34Updated 3 years ago
- A modular compiler for biological chemical reaction networks☆40Updated 2 months ago
- ☆104Updated 2 years ago
- A structure-based, alignment-free embedding approach for proteins. Can be used as input to machine learning algorithms.☆38Updated last year
- Fork of matteofigliuzzi/bmDCA repository for Boltzmann-machine Direct Coupling Analysis (bmDCA).☆33Updated 4 years ago
- Source code for fitting thermodynamic models (MoCHI), downstream analyses and to reproduce all figures in the following publication: Mapp…☆18Updated last year
- ☆18Updated 6 years ago
- Reimplementation of the UniRep protein featurization model.☆104Updated 2 months ago
- Learning Kinetic Models from Time Series Proteomics and Metabolomics Data☆28Updated 2 years ago
- Direct coupling analysis software for protein and RNA sequences☆45Updated last year
- Analysis and figure code from Alley et al. 2019.☆58Updated last year
- Symbolic Kinetic Models with Python☆30Updated last month
- ☆35Updated 5 years ago
- ☆20Updated 3 years ago
- Interpretable genotype-phenotype landscape modeling☆35Updated 11 months ago
- Implementation of "Generative Modeling for Protein Structures" by Namrata Anand and Po-Ssu Huang☆18Updated 3 years ago
- Fast and accurate protein structure prediction☆49Updated last year
- Code associated with "Biophysical prediction of protein-peptide interactions and signaling networks using machine learning."☆70Updated 6 months ago
- A machine learning tool to improve the effectiveness of strain engineering in synthetic biology☆54Updated last year
- PyMOL extension to color AlphaFold structures by confidence (pLDDT).☆71Updated 3 months ago
- Amino Acid Embedding Representation as Machine Learning Features☆19Updated 6 years ago
- Variational autoencoder for protein sequences - add metal binding sites and generate sequences for novel topologies☆80Updated last year
- An unofficial re-implementation of AntiBERTy, an antibody-specific protein language model, in PyTorch.☆22Updated 7 months ago
- Protein function prediction using a variational autoencoder☆92Updated 6 years ago
- Protein design and variant prediction using autoregressive generative models☆92Updated 9 months ago