jmschrei / bpnet-liteLinks
This repository hosts a minimal version of a Python API for BPNet.
☆53Updated 2 months ago
Alternatives and similar repositories for bpnet-lite
Users that are interested in bpnet-lite are comparing it to the libraries listed below
Sorting:
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆86Updated 3 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…☆55Updated 2 weeks ago
- scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution.☆51Updated 2 months ago
- code to run EPInformer for gene expression prediction and gene-enhancer link prediction☆44Updated 3 months ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 9 months ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆71Updated 2 years ago
- A method for analyzing scATAC-seq experiments.☆34Updated 6 months ago
- ☆25Updated last year
- deep learning-inspired explainable sequence model for transcription initiation☆100Updated 10 months ago
- Dataloader for applying sequence models to personalized genomics☆27Updated last week
- C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.☆82Updated last year
- Decima is a Python library to train sequence models on single-cell RNA-seq data.☆59Updated 2 weeks ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆89Updated last month
- code to run sei and obtain sei and sequence class predictions☆110Updated 3 years ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph☆92Updated 2 months ago
- Toolset for training quantitative sequence to function models.☆23Updated last year
- Machine learning methods for DNA sequence analysis.☆57Updated 4 months ago
- High-definition modeling of chromatin + transcriptomics data☆26Updated 8 months ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆32Updated 11 months ago
- ☆26Updated 8 months ago
- ☆34Updated 11 months ago
- A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence☆33Updated last year
- Code and data used in The Great Repertoire Project☆29Updated 4 years ago
- sequence-based prediction of multiscale genome structure from kilobase to whole-chromosome scale☆92Updated 10 months ago
- Weighted Nearest Neighbors Analysis implemented in Python (pyWNN)☆19Updated 4 years ago
- Elucidating the Utility of Genomic Elements with Neural Nets☆70Updated last year
- Fast Gene Set Enrichment Analysis (GSEA) implementation of the prerank algorithm. Use Loess interpolation of bimodal ES distribution for …☆57Updated 7 months ago
- A python package for chromVAR☆32Updated 2 years ago
- Repository for modeling PRO-cap data with the BPNet-like model, ProCapNet.☆17Updated 4 months ago
- Universal Single-Cell Genomics Preprocessing package☆48Updated this week