ciccalab / SIMPLILinks
SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
☆38Updated last month
Alternatives and similar repositories for SIMPLI
Users that are interested in SIMPLI are comparing it to the libraries listed below
Sorting:
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆57Updated 4 months ago
- scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images☆93Updated last month
- Histology Topography Cytometry Analysis Toolbox☆67Updated 2 weeks ago
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆31Updated last month
- A toolkit for processing multiplexed tissue images☆65Updated 2 weeks ago
- Spatial Single-Cell Analysis Toolkit☆100Updated 3 months ago
- TissUUmaps is a browser-based tool for fast visualization and exploration of millions of data points overlaying a tissue sample. TissUUma…☆63Updated 5 months ago
- Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"☆11Updated 2 years ago
- ☆74Updated this week
- Integrated pipeline for multiplexed image analysis☆97Updated 6 months ago
- ☆29Updated last year
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆84Updated 3 months ago
- A pipeline to transform images into valuable analysis items☆15Updated 4 months ago
- ☆61Updated this week
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆46Updated 4 months ago
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆37Updated last year
- ☆39Updated last year
- R package for visualization of highly multiplexed imaging data☆33Updated 5 months ago
- Python package for reading imaging mass cytometry (IMC) files☆16Updated last week
- R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…☆16Updated 4 years ago
- Single-cell spatial proteomics analysis that makes you happy!☆43Updated this week
- Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data☆45Updated last year
- Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…☆38Updated last month
- ☆27Updated last year
- A pixel classification based multiplexed image segmentation pipeline☆101Updated last year
- The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.☆33Updated last year
- ☆13Updated this week
- Interactive visualization of spatial omics data☆70Updated last week
- ☆29Updated last year
- Framework for image and flow cytometry analysis☆30Updated 2 weeks ago