saeyslab / napari-sparrow
https://sparrow-pipeline.readthedocs.io/en/latest/
☆23Updated last week
Alternatives and similar repositories for napari-sparrow:
Users that are interested in napari-sparrow are comparing it to the libraries listed below
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆52Updated this week
- Analyzing cellular niches in spatial transcriptomics data☆28Updated 2 months ago
- Python package for Probe set selection for targeted spatial transcriptomics.☆33Updated 2 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
- ☆39Updated this week
- Probabilistic cell segmentation for in situ spatial transcriptomics☆54Updated this week
- Interoperability between SpatialData and the Xenium Explorer☆17Updated 6 months ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆52Updated 7 months ago
- Code used to benchmark Xenium☆42Updated 7 months ago
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆73Updated 3 weeks ago
- CAST package☆27Updated 3 months ago
- ☆24Updated 3 months ago
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆50Updated 3 weeks ago
- ☆36Updated last month
- ☆43Updated 3 months ago
- Identification of spatial homogeneous regions☆19Updated 2 weeks ago
- The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.☆25Updated 4 months ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆102Updated last month
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆22Updated 6 months ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆36Updated 4 months ago
- ☆23Updated this week
- Bayesian Analytics for Spatial Segmentation☆22Updated 3 months ago
- Spatial omic analysis toolbox for multi-resolution and multi-omic integration using image registration☆47Updated last week
- ☆14Updated 2 weeks ago
- Interactive applications of stlearn☆16Updated last year
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆31Updated 8 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆59Updated 7 months ago
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆71Updated last year
- An R package for performing cell typing in SMI and other single cell data☆33Updated last month
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆33Updated last year