flatironinstitute / st_gridnetLinks
A Python implementation of the model described in our publication "A convolutional neural network for common-coordinate registration of high-resolution histology images" developed principally for applications to registration of spatial transcriptomics image data.
☆25Updated 4 years ago
Alternatives and similar repositories for st_gridnet
Users that are interested in st_gridnet are comparing it to the libraries listed below
Sorting:
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆39Updated last month
- A pixel classification based multiplexed image segmentation pipeline☆103Updated last year
- Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"☆11Updated 2 years ago
- Integrated pipeline for multiplexed image analysis☆99Updated 7 months ago
- ☆70Updated 2 years ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆57Updated 4 months ago
- ☆56Updated 9 months ago
- Subpopulation detection in high-dimensional single-cell data☆71Updated 5 years ago
- Super-resolved spatial transcriptomics by deep data fusion☆74Updated 2 years ago
- Self-Supervised Vision Transformers for multiplexed imaging datasets☆57Updated last year
- Spatial Single-Cell Analysis Toolkit☆103Updated 4 months ago
- scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images☆102Updated this week
- ☆56Updated 3 years ago
- ☆11Updated 5 years ago
- Self-supervised models for encoding protein localization patterns from microscopy images☆78Updated 3 months ago
- ☆24Updated 2 years ago
- A toolkit for processing multiplexed tissue images☆66Updated last week
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆31Updated 2 weeks ago
- Spatial Transcriptomics Quantification pipeline for 10x Visium and H&E-stained whole slide images☆21Updated 6 months ago
- Histology Topography Cytometry Analysis Toolbox☆69Updated 3 weeks ago
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆46Updated 5 months ago
- MUSE is a deep learning approach characterizing tissue composition through combined analysis of morphologies and transcriptional states f…☆36Updated 3 years ago
- ☆39Updated last year
- ☆24Updated 7 months ago
- ☆27Updated last year
- Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data☆46Updated last year
- ☆33Updated 10 months ago
- ☆18Updated last year
- Machine learning for Analysis of Proteomics in Spatial biology - Nature Communications☆62Updated last year
- ☆27Updated 6 years ago