biocompibens / pySpacellLinks
A Python package for single-cell spatial image analysis.
☆18Updated 2 years ago
Alternatives and similar repositories for pySpacell
Users that are interested in pySpacell are comparing it to the libraries listed below
Sorting:
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆39Updated 2 months ago
- Python API and Jupyter widget for Vitessce☆59Updated last week
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆31Updated 2 weeks ago
- ☆18Updated last year
- Fast reconstruction of spatial networks from bioimages.☆25Updated 6 months ago
- rna2seg☆17Updated 6 months ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆57Updated 4 months ago
- TissUUmaps is a browser-based tool for fast visualization and exploration of millions of data points overlaying a tissue sample. TissUUma…☆66Updated 6 months ago
- ☆77Updated last week
- Biology-driven deep generative model for cell-type annotation in cytometry. Scyan is an interpretable model that also corrects batch-effe…☆38Updated last year
- Static plotting for spatialdata☆71Updated this week
- Self-Supervised Vision Transformers for multiplexed imaging datasets☆58Updated last year
- Minimum Information about Tissue Imaging☆21Updated 2 years ago
- Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…☆40Updated 2 weeks ago
- Framework for image and flow cytometry analysis☆31Updated last month
- Optimal gating strategies for flow and mass cytometry.☆16Updated 2 weeks ago
- ☆27Updated last year
- Image registration (alignment) software for large microscopy images☆26Updated 2 years ago
- Self-supervised models for encoding protein localization patterns from microscopy images☆78Updated 3 months ago
- ☆30Updated last year
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆46Updated 5 months ago
- Library for managing, storage, viewing, and working with spatial transcriptomics data using Imglib2, N5, BigDataViewer and Fiji.☆29Updated 5 months ago
- A Python package using Gromov-Wasserstein distance to compare cell shapes☆21Updated last month
- TissUUmaps is a browser-based tool for fast visualization and exploration of millions of data points overlaying a tissue sample. TissUUma…☆24Updated 2 years ago
- Pixie pipeline described in Liu et al., Robust phenotyping of highly multiplexed tissue imaging data using pixel-level clustering☆11Updated 2 years ago
- ☆35Updated last year
- scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images☆102Updated this week
- ☆39Updated last year
- ☆31Updated this week
- Integrated pipeline for multiplexed image analysis☆99Updated 7 months ago