jaleesr / SenePyLinks
SenePy is a set of tools to score single-cells based on their expression of cell-specific senescence markers. Please see the following publication By Sanborn MA et al in Nature Communications (2025) https://www.nature.com/articles/s41467-025-57047-7 which describes the framework. Please also cite this publication if you use SenePy in your work.
☆39Updated 5 months ago
Alternatives and similar repositories for SenePy
Users that are interested in SenePy are comparing it to the libraries listed below
Sorting:
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆54Updated 2 months ago
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆32Updated last year
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆78Updated 3 months ago
- Aligning gene expression trajectories of single-cell reference and query systems☆69Updated 9 months ago
- Repository for ENACT pipeline for end-to-end analysis of Visium HD data☆53Updated last month
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆74Updated 2 years ago
- Analysis of cell-cell communication at single-cell resolution☆101Updated 10 months ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆69Updated last week
- Gene regulatory network containing signed transcription factor-target gene interactions☆84Updated last month
- ☆54Updated 3 weeks ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆63Updated last week
- R package for pathway analysis in scRNA-seq data☆75Updated 11 months ago
- Single-cell Lung Cancer Atlas with 1.2M cells☆64Updated 5 months ago
- Direct estimation of mean and covariance from single cell RNA seq experiments☆111Updated 2 months ago
- Python implementation of Milo for differential abundance testing on KNN graph☆74Updated 5 months ago
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆28Updated 7 months ago
- Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".☆117Updated 10 months ago
- Gene group activity utility functions for Scanpy☆79Updated 6 months ago
- ☆53Updated 9 months ago
- R implementation of GeneTrajectory☆60Updated last year
- CellANOVA: Cell State Space Analysis of Variance for signal recovery in single cell batch integration☆48Updated 8 months ago
- Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics☆39Updated 3 weeks ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 2 years ago
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆76Updated this week
- STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)☆107Updated 2 months ago
- ☆28Updated 4 months ago
- Accurate and fast cell marker gene identification with COSG☆46Updated 3 months ago
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆61Updated last year
- Estimation of Single-Cell Potency with Single Cell Entropy☆41Updated 2 years ago
- ☆68Updated last year