johli / seqprop
Stochastic Sequence Propagation - A Keras Model for optimizing DNA, RNA and protein sequences based on a predictor
☆41Updated last month
Related projects: ⓘ
- Evolutionary velocity with protein language models☆83Updated 11 months ago
- Mutation effects predicted from sequence co-variation☆59Updated 7 years ago
- Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…☆57Updated 2 years ago
- Interpretation by Deep Generative Masking for Biological Sequences☆34Updated 2 years ago
- Code and data to reproduce analyses in Biswas et al. (2020) "Low-N protein engineering with data-efficient deep learning".☆56Updated 3 years ago
- ERGO is a deep learing based model for predicting TCR-peptide binding.☆17Updated 2 years ago
- Code for "Optimizing 5’UTRs for mRNA-delivered gene editing using deep learning"☆13Updated 2 months ago
- ☆63Updated 11 months ago
- Modeling of human 5′ UTRs enables the design of new sequences for target levels of translation and 5′ UTR variant prediction.☆41Updated 5 years ago
- ☆43Updated last year
- ☆22Updated 8 months ago
- End-to-end deep learning toolkit for predicting protein binding sites and motifs.☆44Updated 5 years ago
- Python package and command line tool for epitope prediction☆48Updated last month
- Methods for mapping genomic data onto 3D protein structure.☆27Updated 2 years ago
- ScanFold is an RNA sequence scanning pipeline which attempts to identify potentially functional RNA secondary structures. This is done by…☆15Updated last year
- GraphPart, a data partitioning method for ML on biological sequences☆20Updated 10 months ago
- We present Envision, an accurate predictor of protein variant molecular effect, trained using large-scale experimental mutagenesis data. …☆16Updated 6 years ago
- accurate prediction of promoter activity and variant effects from massive parallel reporter assays☆26Updated last year
- A Python tool for prediction MHC ligand☆33Updated 5 years ago
- Collection of papers related to BCR repertoire analyses☆17Updated 2 years ago
- Comprehensive Python client for the Uniprot REST API☆43Updated last month
- Singularity recipe for AlphaFold☆32Updated last year
- ViennaRNA Package consists of a C code library for the prediction and comparison of RNA secondary structures☆14Updated 2 years ago
- Species-aware DNA language modeling☆17Updated last year
- Improving RNA structure prediction through multitask learning on diverse crowdsourced data.☆48Updated 2 months ago
- ☆37Updated 3 weeks ago
- A software-suite to perform multiple protein structure alignment and structure feature extraction.☆26Updated last year
- An error model and pipeline for analyzing deep mutational scanning (DMS) data and diagnosing common experimental pathologies☆28Updated 5 months ago
- Deep-learning empowered prediction and generation of immunogenic epitopes for T cell immunity☆59Updated last year
- ☆24Updated 2 months ago