Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Joint collaboration between the Marks lab and the OATML group.
☆194Mar 16, 2024Updated last year
Alternatives and similar repositories for EVE
Users that are interested in EVE are comparing it to the libraries listed below
Sorting:
- Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…☆67Sep 13, 2022Updated 3 years ago
- Official repository for the paper "Learning from pre-pandemic data to forecast viral antibody escape"☆70Oct 11, 2023Updated 2 years ago
- Evolutionary couplings from protein and RNA sequence alignments☆297Oct 23, 2025Updated 4 months ago
- Mutation effects predicted from sequence co-variation☆74Sep 3, 2017Updated 8 years ago
- Official repository for the ProteinGym benchmarks☆391Jan 12, 2026Updated last month
- Official repository for the paper "Tranception: Protein Fitness Prediction with Autoregressive Transformers and Inference-time Retrieval"☆162Aug 24, 2023Updated 2 years ago
- Official code repository for the paper "ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers"☆129Nov 19, 2025Updated 3 months ago
- Genomic Pre-trained Network☆325Feb 24, 2026Updated last week
- A generative latent variable model for biological sequence families.☆247Mar 15, 2022Updated 3 years ago
- ☆76Oct 27, 2021Updated 4 years ago
- iAnnotateSV is a Python library and command-line software toolkit to annotate and visualize structural variants detected from Next Genera…☆16Dec 31, 2025Updated 2 months ago
- Language modeling of viral evolution☆149Mar 24, 2023Updated 2 years ago
- Detects human contamination in bam files☆16Sep 10, 2020Updated 5 years ago
- Protein scoring and sampling of 'Combinatorial Variant Effects from Structure' (CoVES)☆11Jan 5, 2024Updated 2 years ago
- ☆86Sep 20, 2023Updated 2 years ago
- Supporting repository for "Protein language models trained on multiple sequence alignments learn phylogenetic relationships" (https://www…☆17Jan 17, 2025Updated last year
- Structural variant pipeline☆18Jun 25, 2020Updated 5 years ago
- Structure-conditioned masked language modeling for protein sequence design☆71Jan 31, 2024Updated 2 years ago
- A machine-learning package for navigating combinatorial protein fitness landscapes.☆133Nov 17, 2021Updated 4 years ago
- ☆16Feb 15, 2026Updated 2 weeks ago
- Non-parametric structural variant genotyper☆15Nov 18, 2021Updated 4 years ago
- ☆40Sep 17, 2024Updated last year
- SARS-CoV-2 analysis pipeline for multiplex-PCR MPS(Massive Parrallel Sequencing) data☆20Jan 24, 2022Updated 4 years ago
- ☆136Aug 8, 2024Updated last year
- dv-trio provides a pipeline to call variants for a trio (father-mother-child) using DeepVariants [1]. Genomic Variant Calling Files (gVCF…☆11Feb 3, 2021Updated 5 years ago
- Evolutionary Scale Modeling (esm): Pretrained language models for proteins☆3,986Feb 7, 2024Updated 2 years ago
- Neural networks to fit interpretable models and quantify energies, energetic couplings, epistasis, and allostery from deep mutational sca…☆55Apr 10, 2025Updated 10 months ago
- VESPA is a simple, yet powerful Single Amino Acid Variant (SAV) effect predictor based on embeddings of the Protein Language Model ProtT5…☆34Mar 4, 2024Updated 2 years ago
- STRspy: a novel alignment and quantification-based state-of-the-art method, short tandem repeat (STR) detection calling tool designed spe…☆18Feb 21, 2026Updated last week
- Structural Variants Assessment Based on Haplotype-resolved Assemblies☆21Apr 28, 2023Updated 2 years ago
- ☆13May 27, 2025Updated 9 months ago
- Exploring Evolution-aware & free protein language models as protein function predictors☆63Sep 28, 2024Updated last year
- GNN trained to predict changes in thermodynamic stability for protein point mutants☆226Aug 7, 2025Updated 6 months ago
- Evolutionary velocity with protein language models☆97Dec 9, 2025Updated 2 months ago
- CARE: a Benchmark Suite for the Classification and Retrieval of Enzymes☆41Jun 17, 2025Updated 8 months ago
- Diffusion-based all-atom protein generative model.☆232Aug 27, 2025Updated 6 months ago
- 🧬 Augmenting zero-shot mutant prediction by retrieval-based logits fusion. (ISMB/ECCB 2025)☆122Feb 7, 2026Updated 3 weeks ago
- ☆26May 24, 2024Updated last year
- Efficient and accurate pathogenicity prediction for coding and regulatory structural variants in long-read genome sequencing☆39Nov 28, 2025Updated 3 months ago