yuqiyuqitan / SPACEc
☆29Updated last month
Alternatives and similar repositories for SPACEc:
Users that are interested in SPACEc are comparing it to the libraries listed below
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆110Updated 2 weeks ago
- Spatial Single-Cell Analysis Toolkit☆86Updated last month
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆33Updated 10 months ago
- Single-cell spatial proteomics analysis that makes you happy!☆23Updated last week
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆57Updated this week
- ☆49Updated 9 months ago
- ☆42Updated 3 months ago
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆75Updated last year
- ☆45Updated this week
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆34Updated 2 weeks ago
- Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022☆53Updated 2 years ago
- Open-ST: profile and analyze tissue transcriptomes in 3D with high resolution in your lab☆94Updated 4 months ago
- ☆31Updated 2 months ago
- Probabilistic cell segmentation for in situ spatial transcriptomics☆66Updated this week
- Super-resolved spatial transcriptomics by deep data fusion☆72Updated last year
- Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data☆40Updated 8 months ago
- Spatial direct messaging detected by bivariate Moran☆25Updated 2 months ago
- Join subcellular Visium HD bins into cells☆85Updated 3 months ago
- https://sparrow-pipeline.readthedocs.io/en/latest/☆26Updated 2 weeks ago
- Interoperability between SpatialData and the Xenium Explorer☆19Updated 7 months ago
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆76Updated 3 weeks ago
- a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challe…☆48Updated last week
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆57Updated 4 months ago
- Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation☆45Updated 2 years ago
- Code used to benchmark Xenium☆51Updated 8 months ago
- R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…☆14Updated 3 years ago
- Python package for Probe set selection for targeted spatial transcriptomics.☆35Updated 3 months ago
- Code companion to the publication "High resolution mapping of the breast cancer tumor microenvironment using integrated single cell, spat…☆18Updated last year
- Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoC…☆173Updated this week
- Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…☆34Updated last week