kundajelab / simdnaLinks
A python library for creating simulated regulatory DNA sequences
☆39Updated 2 years ago
Alternatives and similar repositories for simdna
Users that are interested in simdna are comparing it to the libraries listed below
Sorting:
- Standard set of data-loaders for training and making predictions for DNA sequence-based models.☆83Updated last year
- Downloader for ENCODE☆32Updated 5 years ago
- Simple and efficient access to genomic data for deep learning models.☆42Updated 6 years ago
- ☆26Updated 4 years ago
- Multi-omics Autoencoder Integration: Deep learning-based heterogenous data analysis toolkit☆51Updated 2 years ago
- ☆38Updated 2 years ago
- Infer selection pressures on features of amino acid CDR3 sequences.☆25Updated last year
- A Python package for gene network analysis☆32Updated 3 years ago
- MAVE-NN: genotype-phenotype maps from multiplex assays of variant effect☆28Updated 2 months ago
- Deep Feature Interaction Maps (DFIM)☆54Updated 6 years ago
- Tissue-specific variant effect predictions on splicing☆42Updated 2 years ago
- Python interface to running command-line and web-based MHC binding predictors☆99Updated last year
- Code for the CRISPOR article, all data and code to create figures and analysis☆47Updated 9 years ago
- Predicting gene expression levels from genomic sequences☆54Updated 5 years ago
- Notebooks accompanying the paper "Navigating the pitfalls of applying machine learning in genomics"☆46Updated 2 years ago
- Code for the paper "Integrating regulatory DNA sequence and gene expression to predict genome-wide chromatin accessibility across cellula…☆44Updated 4 years ago
- Concise: Keras extension for regulatory genomics☆35Updated 3 years ago
- ☆33Updated 3 years ago
- python (cython) wrapper for https://github.com/ryanlayer/giggle for fast interval searching of huge datasets.☆15Updated 7 years ago
- MHC Class I and Class II neoantigen binding prediction☆34Updated 6 months ago
- GOMCL: a toolkit to cluster, evaluate, and extract non-redundant associations of Gene Ontology-based functions☆22Updated 2 years ago
- accurate prediction of promoter activity and variant effects from massive parallel reporter assays☆43Updated 7 months ago
- Annotation of mutated peptide sequences with published or novel potential neoantigen descriptors☆34Updated 2 weeks ago
- Genepy is an open source utils package covering a range of useful functions for large scale genomics data analysis in python☆21Updated 2 years ago
- Comparison of Adaptive Immune Receptor Repertoires☆28Updated last year
- Avocado is a multi-scale deep tensor factorization model that learns a latent representation of the human epigenome and enables imputatio…☆120Updated 3 years ago
- Python interface to amino acid properties and IEDB☆57Updated last year
- Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…☆67Updated 3 years ago
- A deep learning approach for predicting high-confidence neoantigens by considering both the presentation possibilities of mutant peptides…☆44Updated 2 years ago
- Predict mutated T-cell epitopes from sequencing data☆30Updated 11 months ago