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
- ☆26Updated 4 years ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆32Updated 11 months ago
- Infer selection pressures on features of amino acid CDR3 sequences.☆24Updated last year
- Code for the paper "Integrating regulatory DNA sequence and gene expression to predict genome-wide chromatin accessibility across cellula…☆44Updated 4 years ago
- ☆38Updated 2 years ago
- ☆33Updated 3 years ago
- Python interface to running command-line and web-based MHC binding predictors☆99Updated last year
- Deep Feature Interaction Maps (DFIM)☆53Updated 6 years ago
- Predicting gene expression levels from genomic sequences☆55Updated 5 years ago
- MAVE-NN: genotype-phenotype maps from multiplex assays of variant effect☆28Updated 2 weeks ago
- Simple and efficient access to genomic data for deep learning models.☆42Updated 5 years ago
- Notebooks accompanying the paper "Navigating the pitfalls of applying machine learning in genomics"☆46Updated 2 years 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
- A Python package for gene network analysis☆32Updated 3 years ago
- Tissue-specific variant effect predictions on splicing☆42Updated 2 years ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆71Updated 2 years ago
- Elucidating the Utility of Genomic Elements with Neural Nets☆70Updated last year
- HTS-compatible wrapper for IgBlast V-(D)-J mapping tool☆53Updated last year
- IGoR is a C++ software designed to infer V(D)J recombination related processes from sequencing data. Find full documentation at:☆52Updated 3 years ago
- Multi-omics Autoencoder Integration: Deep learning-based heterogenous data analysis toolkit☆50Updated 2 years ago
- Concise: Keras extension for regulatory genomics☆35Updated 3 years ago
- python (cython) wrapper for https://github.com/ryanlayer/giggle for fast interval searching of huge datasets.☆15Updated 7 years ago
- Code for the CRISPOR article, all data and code to create figures and analysis☆46Updated 9 years ago
- Saluki, a method to predict mRNA half-lives from sequence☆27Updated 3 years ago
- Comparison of Adaptive Immune Receptor Repertoires☆28Updated 10 months ago
- MHC Class I and Class II neoantigen binding prediction☆33Updated 5 months ago
- Ranked vaccine peptides for personalized cancer immunotherapy☆59Updated last year
- Knowledge-primed neural networks☆38Updated 2 years ago