Lists (21)
Cell tracking
1 repository
Dataset
16 repositories
Diffusion Model
2 repositories
Fine-tune
1 repository
fluorescence image analysis
1 repository
Image Classificaiton
1 repository
Image Deconvolution
Image deblurring, image deconvolution, deconvolution microscopy19 repositories
Image denoising
4 repositories
Image Reconstruction
MR image reconstruction11 repositories
Image Restoration
6 repositories
Image Segmentation
13 repositories
Image Super-Resolution
Image super-resolution17 repositories
Learning
CV, Book14 repositories
LLM
Large language models, foundation models, large visual-language models4 repositories
Metrics
5 repositories
MR Parameter Mapping
5 repositories
napari-plugin-dev
Things and template used for napari plugin development.5 repositories
Spatial Transcriptomics
12 repositories
Toolbox
24 repositories
Transformer
4 repositories
volumetric reconstruction
1 repository
Starred repositories
Implementation of Graph Auto-Encoders in TensorFlow
A comprehensive review of techniques to address the missing-modality problem for medical images
GUI tools for pore segmentation from super-resolution images
CVPR 2026-C3-Diff: Super-resolving Spatial Transcriptomics via Cross-modal Cross-content Contrastive Diffusion Modelling
This is a computational tool for the automated retrieval of microtubule filaments from single-molecule-localization-based superresolution microscopy images.
Code for processing MT dynamics from length measurements over time. Fees, C. P., Estrem, C., Moore, J. K. High-resolution Imaging and Analysis of Individual Astral Microtubule Dynamics in Budding Y…
MATLAB codes developed in Courtemanche lab at University of Minnesota for automating analysis of actin filament properties from single molecule microscopy images.
A Fiji plugin that allows easy, fast and accurate detection and tracking of biological filaments.
Extract and visualize filament information from SIFNE analysis output, creating custom plots for various MT parameters, such as MT mass, density, straightness, and junction counet, at both the cell…
Python implementation of the Fourier Ring Correlation (FRC) to determine image resolution
frc is a Python package for computing the Fourier Ring Correlation (FRC) of images using DIPlib
Nanoscopy library for Python (NanoPyx, the successor to NanoJ) - focused on light microscopy and super-resolution imaging
List of Spatial Transcriptomics related Tools organized per category
Integrating histology and spatial transcriptomics - NeurIPS 2024
DeepSpot2Cell: Predicting virtual single-cell spatial transcriptomics from H&E images using spot-level supervision
Awesome generative spatial omics tools
A visual–omics foundation model to bridge histopathology with spatial transcriptomics
Scaling up spatial transcriptomics for large-sized tissues: uncovering cellular-level tissue architecture beyond conventional platforms
Single-cell analysis in Python. Scales to >100M cells.
A GUI tool for easy and smooth visualisation and analysis of Spatial Transcriptomics datasets
Cell level integrated analysis of tissue histology and spatial transcriptomics