jmschrei / bpnet-liteView external linksLinks
This repository hosts a minimal version of a Python API for BPNet.
☆55Jan 24, 2026Updated 3 weeks ago
Alternatives and similar repositories for bpnet-lite
Users that are interested in bpnet-lite are comparing it to the libraries listed below
Sorting:
- Repository for modeling PRO-cap data with the BPNet-like model, ProCapNet.☆18Aug 28, 2025Updated 5 months ago
- Biological sequence analysis for the modern age.☆261Jan 19, 2026Updated 3 weeks ago
- A deep learning approach to predicting transcription initiation from sequence at single nucleotide resolution☆14Feb 7, 2026Updated last week
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆87Sep 24, 2025Updated 4 months ago
- A method for analyzing scATAC-seq experiments.☆34Jun 20, 2025Updated 7 months ago
- Identifying transcription factor binding sites from neural network contribution scores☆17Nov 8, 2025Updated 3 months ago
- ☆42Updated this week
- Ledidi turns any machine learning model into a biological sequence editor, allowing you to design sequences with desired properties.☆100Jan 31, 2026Updated 2 weeks ago
- Jax code for functional genomics ML☆14Mar 5, 2025Updated 11 months ago
- A command-line tool for reading SAM/BAM files and converted them directly to bigwig files.☆20Jan 3, 2026Updated last month
- Code for the analysis performed in the paper "Transcription factor stoichiometry, motif affinity and syntax regulate single-cell chromati…☆12Oct 16, 2025Updated 3 months ago
- Decima is a Python library to train sequence models on single-cell RNA-seq data.☆62Feb 5, 2026Updated last week
- Toolset for training quantitative sequence to function models.☆23Mar 15, 2024Updated last year
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆94Nov 13, 2025Updated 3 months ago
- scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution.☆54Nov 1, 2025Updated 3 months ago
- ☆11Oct 4, 2021Updated 4 years ago
- Machine learning methods for DNA sequence analysis.☆57Feb 2, 2026Updated last week
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆208Feb 2, 2026Updated last week
- ☆25Aug 20, 2024Updated last year
- pandasGWAS: a Python package for easy retrieval of GWAS Catalog data☆17Dec 19, 2025Updated last month
- Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.☆100Sep 9, 2025Updated 5 months ago
- Computational Optimization of DNA Activity (CODA)☆67Apr 3, 2025Updated 10 months ago
- Analyses related to the Borzoi paper.☆25Dec 14, 2025Updated 2 months ago
- CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…☆57Updated this week
- deep learning-inspired explainable sequence model for transcription initiation☆100Mar 3, 2025Updated 11 months ago
- PyTorch implementation of Basenji2.☆19Apr 29, 2025Updated 9 months ago
- RNA-seq prediction with deep convolutional neural networks.☆225Aug 28, 2025Updated 5 months ago
- A python extension for quick access to bigWig and bigBed files☆239Jan 14, 2026Updated last month
- ☆20Jul 16, 2024Updated last year
- ☆19Mar 24, 2023Updated 2 years ago
- ☆11Oct 10, 2024Updated last year
- ☆18Oct 21, 2024Updated last year
- Parse ArchR arrow files to anndata h5ad☆16Dec 14, 2023Updated 2 years ago
- Container class to represent genomic locations and support genomic analysis☆27Updated this week
- Standard set of data-loaders for training and making predictions for DNA sequence-based models.☆83Sep 3, 2024Updated last year
- Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch☆557Jul 7, 2025Updated 7 months ago
- gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.☆314Jan 29, 2026Updated 2 weeks ago
- A python library for creating simulated regulatory DNA sequences☆39Feb 22, 2023Updated 2 years ago
- TF MOtif Discovery from Importance SCOres☆165Dec 14, 2025Updated 2 months ago