10XGenomics / janesick_nature_comms_2023_companionLinks
Code companion to the publication "High resolution mapping of the breast cancer tumor microenvironment using integrated single cell, spatial and in situ analysis of FFPE tissue"
☆28Updated 2 years ago
Alternatives and similar repositories for janesick_nature_comms_2023_companion
Users that are interested in janesick_nature_comms_2023_companion are comparing it to the libraries listed below
Sorting:
- ☆50Updated last month
- Code used to benchmark Xenium☆71Updated last year
- ☆41Updated last month
- Bayesian Analytics for Spatial Segmentation☆30Updated 7 months ago
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆41Updated 9 months ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆144Updated last week
- Join subcellular Visium HD bins into cells☆129Updated last month
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆91Updated last year
- GASTON: deep learning algorithm learns "topography" of a tissue slice from spatial transcriptomics data☆66Updated 5 months ago
- Repository for ENACT pipeline for end-to-end analysis of Visium HD data☆71Updated 5 months ago
- ☆32Updated last month
- scTM: A package for topic modelling in transcriptomics data☆24Updated last year
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆28Updated last year
- UniCell Deconvolve - Cloud Cell Type Deconvolution For Transcriptomic Data☆26Updated 2 years ago
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆70Updated last year
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆38Updated last year
- BANKSY: spatial clustering☆130Updated last month
- Spatial direct messaging detected by bivariate Moran☆31Updated 4 months ago
- Interoperability between SpatialData and the Xenium Explorer☆25Updated last year
- Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…☆104Updated 5 months ago
- The first computational tool that enables both unsupervised and supervised discovery of tissue spatial domains☆33Updated 7 months ago
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆86Updated 3 years ago
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆81Updated 3 years ago
- An R package for handling and analysing imaging mass cytometry data☆28Updated last month
- CeLEry: cell location recovery in single-cell RNA sequencing☆35Updated 9 months ago
- ☆31Updated 9 months ago
- ☆40Updated 3 years ago
- Integrative and Reference-Informed Spatial Domain Detection for Spatial Transcriptomics☆41Updated 10 months ago
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆47Updated 4 years ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆57Updated last week