kundajelab / tfmodisco
TF MOtif Discovery from Importance SCOres
☆124Updated 9 months ago
Related projects ⓘ
Alternatives and complementary repositories for tfmodisco
- Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them☆141Updated 3 months ago
- predicting expression effects of human genome variants ab initio from sequence☆118Updated 3 years ago
- Standard set of data-loaders for training and making predictions for DNA sequence-based models.☆77Updated 2 months ago
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆121Updated 2 months ago
- Single-cell ATAC-seq analysis via Latent feature Extraction☆100Updated last year
- A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.☆85Updated 5 years ago
- Model zoo for genomics☆165Updated 3 months ago
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆58Updated 4 months ago
- C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.☆66Updated 4 months ago
- deep residual neural network for classifying the pathogenicity of missense mutations.☆113Updated 3 years ago
- Deep-learning Augmented RNA-seq analysis of Transcript Splicing☆110Updated 9 months ago
- code to run sei and obtain sei and sequence class predictions☆92Updated last year
- R package to access DoRothEA's regulons☆133Updated 8 months ago
- ☆88Updated 3 years ago
- Code for the paper "Integrating regulatory DNA sequence and gene expression to predict genome-wide chromatin accessibility across cellula…☆44Updated 3 years ago
- Avocado is a multi-scale deep tensor factorization model that learns a latent representation of the human epigenome and enables imputatio…☆113Updated 2 years ago
- A BLAST-like toolkit for large-scale scRNA-seq data querying and annotation.☆86Updated 3 months ago
- Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)☆202Updated 2 months ago
- Downloader for ENCODE☆31Updated 4 years ago
- Models and datasets for perturbational single-cell omics☆142Updated 2 years ago
- ☆83Updated 3 years ago
- Biological sequence analysis for the modern age.☆190Updated last week
- deep learning-inspired explainable sequence model for transcription initiation☆89Updated this week
- Elucidating the Utility of Genomic Elements with Neural Nets☆65Updated this week
- cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data☆135Updated 7 months ago
- Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.☆96Updated 9 months ago
- A Python implementation of edgeR for differential expression analysis☆96Updated 5 years ago
- Benchmarking computational single cell ATAC-seq methods☆177Updated 3 years ago
- A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence☆33Updated 5 months ago
- ☆83Updated 4 years ago