Hughes-Genome-Group / deepCLinks
A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence
☆33Updated last year
Alternatives and similar repositories for deepC
Users that are interested in deepC are comparing it to the libraries listed below
Sorting:
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph☆86Updated 10 months ago
- Saluki, a method to predict mRNA half-lives from sequence☆25Updated 2 years ago
- C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.☆77Updated last year
- code to run sei and obtain sei and sequence class predictions☆106Updated 2 years ago
- ☆26Updated 3 months ago
- Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks☆28Updated 3 months ago
- APA Regression Net - Predict and Engineer Alternative Polyadenylation☆39Updated 3 years ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆64Updated 2 years ago
- sequence-based prediction of multiscale genome structure from kilobase to whole-chromosome scale☆89Updated 5 months ago
- ☆67Updated 2 months ago
- Pipeline for generating reference and perturbed sequences for input into predictive models.☆11Updated 8 months ago
- HiCorr: a Hi-C data bias-correction pipeline☆28Updated 4 months ago
- ☆18Updated 2 years ago
- Code for the paper "Integrating regulatory DNA sequence and gene expression to predict genome-wide chromatin accessibility across cellula…☆44Updated 4 years ago
- Scripts + resources for analyzing combinatorial Hi-C data☆30Updated 5 years ago
- PECA is a software for inferring context specific gene regulatory network from paired gene expression and chromatin accessibility data☆44Updated last year
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆44Updated 8 months ago
- ☆22Updated 8 years ago
- This repository hosts a minimal version of a Python API for BPNet.☆47Updated 2 weeks ago
- Code for reproducing the Sei manuscript results☆17Updated 3 years ago
- ☆35Updated 2 years ago
- Predicting gene expression levels from genomic sequences☆53Updated 5 years ago
- ☆23Updated 11 months ago
- Notes on single-cell Hi-C technologies, tools, and data☆80Updated 9 months ago
- Molecular interactions inference from single-cell multi-omics data☆27Updated 2 months ago
- model-based understanding of single-cell CRISPR screening☆24Updated 7 months ago
- Deep Learning Method to Identify Cancer Associated TCRs☆47Updated 3 years ago
- deep learning-inspired explainable sequence model for transcription initiation☆97Updated 5 months ago
- ☆22Updated 5 months ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 4 months ago