wallet-maker / cytopusLinks
Single cell omics biology annotations
☆51Updated 5 months ago
Alternatives and similar repositories for cytopus
Users that are interested in cytopus are comparing it to the libraries listed below
Sorting:
- Gene group activity utility functions for Scanpy☆90Updated 9 months ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 3 years ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆65Updated last month
- ☆59Updated 3 months ago
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆64Updated 2 months ago
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆41Updated 8 months ago
- Gene regulatory network containing signed transcription factor-target gene interactions☆87Updated 4 months ago
- Predict RNA velocity through deep learning☆70Updated last year
- ☆54Updated 11 months ago
- Context specific and dynamic gene regulatory network reconstruction and analysis☆122Updated 3 weeks ago
- Python implementation of Milo for differential abundance testing on KNN graph☆74Updated 7 months ago
- R implementation of GeneTrajectory☆65Updated last year
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆79Updated 6 months ago
- Functional Inference of Gene Regulation☆46Updated last year
- ☆30Updated 6 months ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆76Updated 2 weeks ago
- All code associated with manuscript detailing scATAC and scRNA-seq following stimulus of PBMCs☆41Updated 2 years ago
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆61Updated last year
- This repository contains our CellTag workflow, as deployed in our 2018 Biddy et al., Nature paper.☆32Updated last year
- ☆46Updated last year
- Non-parametric density inference for single-cell analysis.☆72Updated 4 months ago
- Aligning gene expression trajectories of single-cell reference and query systems☆76Updated last month
- PhyloVelo, Phylogeny-based transcriptomic velocity of single cells☆43Updated 2 weeks ago
- R-package for the analysis of single-cell TCR/BCR data in the Seurat ecosystem☆20Updated 5 months ago
- TACCO: Transfer of Annotations to Cells and their COmbinations☆59Updated last month
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆56Updated 5 months ago
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆77Updated 8 months ago
- Multi-omic velocity inference☆111Updated 11 months ago
- Unified access to several second-generation deconvolution methods☆78Updated last month
- Analysis of cell-cell communication at single-cell resolution☆104Updated last year