ciccalab / SIMPLILinks
SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
☆39Updated 4 months ago
Alternatives and similar repositories for SIMPLI
Users that are interested in SIMPLI are comparing it to the libraries listed below
Sorting:
- Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"☆11Updated 2 years ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆56Updated 7 months ago
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆31Updated 3 months ago
- Spatial Single-Cell Analysis Toolkit☆108Updated last month
- scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images☆105Updated last week
- A toolkit for processing multiplexed tissue images☆67Updated 3 weeks ago
- A pipeline to transform images into valuable analysis items☆18Updated 7 months ago
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆45Updated 7 months ago
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆86Updated 2 months ago
- ☆88Updated this week
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆39Updated last year
- ☆30Updated last year
- Histology Topography Cytometry Analysis Toolbox☆69Updated 3 months ago
- ☆65Updated last week
- ☆41Updated last week
- The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.☆35Updated last year
- R package for visualization of highly multiplexed imaging data☆34Updated 8 months ago
- Integrated pipeline for multiplexed image analysis☆102Updated last month
- Single-cell spatial proteomics analysis that makes you happy!☆51Updated this week
- ☆14Updated last month
- ☆27Updated last year
- TissUUmaps is a browser-based tool for fast visualization and exploration of millions of data points overlaying a tissue sample. TissUUma…☆66Updated 2 months ago
- Library for managing, storage, viewing, and working with spatial transcriptomics data using Imglib2, N5, BigDataViewer and Fiji.☆30Updated 8 months ago
- Python package for reading imaging mass cytometry (IMC) files☆18Updated 2 weeks ago
- R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…☆17Updated 4 years ago
- Interactive visualization of spatial omics data☆75Updated last week
- Multiple-choice microscopy pipeline☆145Updated last week
- Spatial analysis of FISH data☆34Updated 8 months ago
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆95Updated 2 years ago
- comseg☆24Updated last year