aertslab / pycisTopic
pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
☆66Updated this week
Alternatives and similar repositories for pycisTopic:
Users that are interested in pycisTopic are comparing it to the libraries listed below
- Functional Inference of Gene Regulation☆41Updated 9 months ago
- ☆35Updated 7 months ago
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆69Updated 2 months ago
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆61Updated 11 months ago
- Analysis of cell-cell communication at single-cell resolution☆100Updated 7 months ago
- ☆50Updated 7 months ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 2 years ago
- Direct estimation of mean and covariance from single cell RNA seq experiments☆103Updated 2 months ago
- Publication Page for Satpathy*, Granja* et al 2019☆94Updated 4 years ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆71Updated 3 weeks ago
- trajectory inference☆96Updated 2 months ago
- Python implementation of Milo for differential abundance testing on KNN graph☆64Updated last month
- Single cell omics biology annotations☆51Updated last month
- Single-cell Lung Cancer Atlas with 1.2M cells☆61Updated 2 months ago
- Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.☆93Updated last year
- Single-cell disease relevance score (scDRS)☆126Updated 5 months ago
- ☆46Updated 2 years ago
- ☆72Updated this week
- scWGCNA☆58Updated 2 years ago
- R package for pathway analysis in scRNA-seq data☆72Updated 7 months ago
- Create cisTarget databases☆47Updated 2 months ago
- A repository of pipelines for single-cell data in Nextflow DSL2☆75Updated last year
- mutation(barcode) caller for 10x single cell data☆44Updated 4 years ago
- R implementation of GeneTrajectory☆58Updated last year
- ☆49Updated 6 months ago
- Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis☆54Updated 11 months ago
- Publication Page for MPAL Paper 2019☆82Updated 4 years ago
- Methods to discover gene programs on single-cell data☆109Updated 3 weeks ago
- Efficient and precise single-cell reference atlas mapping with Symphony☆103Updated 2 years ago
- Single-Cell ENhancer Target gene mapping using multimodal data with ATAC + RNA☆74Updated 7 months ago