ma-compbio / HigashiLinks
single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
☆89Updated last year
Alternatives and similar repositories for Higashi
Users that are interested in Higashi are comparing it to the libraries listed below
Sorting:
- ☆68Updated 4 months ago
- C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.☆79Updated last year
- Weighted Nearest Neighbors Analysis implemented in Python (pyWNN)☆18Updated 3 years ago
- Notes on single-cell Hi-C technologies, tools, and data☆83Updated 11 months ago
- Scripts + resources for analyzing combinatorial Hi-C data☆31Updated 5 years ago
- code to run EPInformer for gene expression prediction and gene-enhancer link prediction☆43Updated last week
- code to run sei and obtain sei and sequence class predictions☆109Updated 2 years ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆67Updated 2 years ago
- ☆26Updated 5 months ago
- A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence☆33Updated last year
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆64Updated 2 months ago
- deep learning-inspired explainable sequence model for transcription initiation☆96Updated 7 months ago
- ☆35Updated 3 years ago
- ☆36Updated last year
- ☆49Updated last week
- a computational tool for analyzing single cell Hi-C data☆25Updated last year
- sequence-based prediction of multiscale genome structure from kilobase to whole-chromosome scale☆92Updated 7 months ago
- ☆114Updated 4 months ago
- Multi-omic velocity inference☆111Updated 11 months ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, genome subcompartment☆21Updated last year
- Toolkit for single-cell DNA methylation analysis.☆42Updated 2 weeks ago
- Single-cell ATAC-seq analysis via Latent feature Extraction☆103Updated 2 years ago
- PECA is a software for inferring context specific gene regulatory network from paired gene expression and chromatin accessibility data☆45Updated 3 weeks ago
- Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space☆79Updated 3 weeks ago
- Molecular interactions inference from single-cell multi-omics data☆27Updated last week
- Must-read papers on deep learning based methodology paper for single cell data analysis☆18Updated 4 years ago
- ☆44Updated last year
- Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.☆98Updated 3 weeks ago
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆41Updated 8 months ago
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆179Updated 3 weeks ago