kundajelab / tfmodiscoLinks
TF MOtif Discovery from Importance SCOres
☆161Updated 2 weeks ago
Alternatives and similar repositories for tfmodisco
Users that are interested in tfmodisco are comparing it to the libraries listed below
Sorting:
- Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them☆169Updated 2 months ago
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆86Updated 3 months ago
- predicting expression effects of human genome variants ab initio from sequence☆132Updated 11 months ago
- Biological sequence analysis for the modern age.☆258Updated 2 weeks ago
- code to run sei and obtain sei and sequence class predictions☆109Updated 3 years ago
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆195Updated 3 months ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆89Updated last month
- C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.☆82Updated last year
- ☆34Updated 11 months ago
- This repository hosts a minimal version of a Python API for BPNet.☆53Updated 2 months ago
- deep learning-inspired explainable sequence model for transcription initiation☆100Updated 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
- sequence-based prediction of multiscale genome structure from kilobase to whole-chromosome scale☆92Updated 9 months ago
- A python extension for quick access to bigWig and bigBed files☆238Updated 11 months ago
- Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.☆100Updated 3 months ago
- A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence☆33Updated last year
- RNA-seq prediction with deep convolutional neural networks.☆216Updated 4 months ago
- 📚 Tools and databases for analyzing HLA and VDJ genes.☆234Updated 2 months ago
- deep residual neural network for classifying the pathogenicity of missense mutations.☆115Updated 4 years ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 8 months ago
- Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data☆123Updated 3 months ago
- Realistic in silico generation and augmentation of single cell RNA-seq data using Generative Adversarial Neural Networks☆87Updated last year
- Jupyter notebook based genomic data visualization toolkit.☆249Updated 3 weeks ago
- Single-cell ATAC-seq analysis via Latent feature Extraction☆103Updated 2 years ago
- Standard set of data-loaders for training and making predictions for DNA sequence-based models.☆83Updated 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
- Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)☆243Updated 6 months ago
- Model zoo for genomics☆173Updated last week
- A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.☆97Updated 6 years ago
- code to run EPInformer for gene expression prediction and gene-enhancer link prediction☆44Updated 3 months ago