almaan / stereoscopeLinks
Spatial mapping of cell types by integration of transcriptomics data
☆93Updated 2 years ago
Alternatives and similar repositories for stereoscope
Users that are interested in stereoscope are comparing it to the libraries listed below
Sorting:
- ☆120Updated 3 years ago
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆129Updated 4 months ago
- BANKSY: spatial clustering☆112Updated last week
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆126Updated 3 weeks ago
- Join subcellular Visium HD bins into cells☆111Updated last month
- A tool for semi-automatic cell type harmonization and integration☆107Updated 2 months ago
- Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…☆80Updated last week
- ☆119Updated last year
- Methods to discover gene programs on single-cell data☆124Updated last week
- Repository for ENACT pipeline for end-to-end analysis of Visium HD data☆51Updated last week
- ☆117Updated last year
- trajectory inference☆103Updated 4 months ago
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆76Updated 7 months ago
- ☆78Updated last week
- Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022☆53Updated 3 years ago
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆71Updated 2 years ago
- ☆104Updated 4 years ago
- Code used to benchmark Xenium☆63Updated 11 months ago
- Python implementation of Milo for differential abundance testing on KNN graph☆71Updated 4 months ago
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆43Updated 3 years ago
- This repository contains all code used for the Human Lung Cell Atlas project.☆49Updated last year
- Construct Tumor Transition Zone Microenvironment☆44Updated 7 months ago
- Metacells - Single-cell RNA Sequencing Analysis☆107Updated 8 months ago
- inferring cell-cell communication from scRNA-seq of ligand-receptor☆82Updated last year
- Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data☆71Updated 5 months ago
- MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…☆147Updated 5 months ago
- Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".☆116Updated 9 months ago
- Collection of computational tools for cell-cell communication inference for single-cell and spatially resolved omics☆50Updated 2 weeks ago
- ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …☆84Updated 3 months ago
- Single-cell Lung Cancer Atlas with 1.2M cells☆63Updated 5 months ago