YeoLab / bento-tools
A Python toolkit for subcellular analysis of spatial transcriptomics data
☆77Updated last week
Alternatives and similar repositories for bento-tools:
Users that are interested in bento-tools are comparing it to the libraries listed below
- Python package for Probe set selection for targeted spatial transcriptomics.☆35Updated 4 months ago
- The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.☆27Updated 6 months ago
- Single-cell spatial proteomics analysis that makes you happy!☆25Updated this week
- ☆45Updated 4 months ago
- Probabilistic cell segmentation for in situ spatial transcriptomics☆68Updated 2 weeks ago
- ☆52Updated this week
- https://sparrow-pipeline.readthedocs.io/en/latest/☆26Updated last month
- Spatial Single-Cell Analysis Toolkit☆89Updated 2 weeks ago
- ☆30Updated 11 months ago
- ☆56Updated last week
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆60Updated last week
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆52Updated 10 months ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆113Updated last week
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆77Updated last year
- GraphCompass: Graph Comparison Tools for Differential Analyses in Spatial Systems☆35Updated 2 months ago
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆53Updated last week
- ☆26Updated 6 months ago
- ☆46Updated last week
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆35Updated 11 months ago
- ☆28Updated 6 months ago
- Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…☆38Updated this week
- Spatial direct messaging detected by bivariate Moran☆26Updated 2 months ago
- ☆33Updated this week
- Interoperability between SpatialData and the Xenium Explorer☆21Updated 8 months ago
- Interactive visualization of spatial omics data☆52Updated this week
- CAST package☆33Updated 5 months ago
- ☆21Updated 4 years ago
- ☆16Updated 2 months ago
- ☆34Updated last year
- Identification of spatial homogeneous regions☆20Updated 2 months ago