MunskyGroup / FISH_ProcessingLinks
Repository to automatically process Fluorescence In Situ Hybridization (FISH) images using Cellpose and BIG-FISH (FISH-quant v2).
☆17Updated last year
Alternatives and similar repositories for FISH_Processing
Users that are interested in FISH_Processing are comparing it to the libraries listed below
Sorting:
- Deep learning based spot detection for FISH images.☆31Updated last month
- A self-explanatory, hands-on intro to bioimage analysis in python. Slightly outdated but still much liked by learners.☆99Updated 2 years ago
- Toolbox for the analysis of smFISH images.☆73Updated 2 years ago
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆31Updated 3 months ago
- EASI-FISH analysis pipeline for spatial transcriptomics☆35Updated last year
- napari plugin for cellpose (see www.cellpose.org) - an anatomical segmentation tool☆61Updated last year
- A scalable machine learning pipeline for probe specificity prediction.☆14Updated 2 years ago
- ☆91Updated 3 months ago
- Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python☆221Updated 2 months ago
- Cell tracking and segmentation software☆168Updated this week
- Python Jupyter notebooks for BioImageAnalysis, GPU-accelerated image processing, bio-image data science and more☆153Updated 3 weeks ago
- A collection of resources on bioimage analysis and related tools and techniques☆14Updated 2 years ago
- Image registration (alignment) software for large microscopy images☆27Updated 2 years ago
- Pure Python library for reading NIS Elements ND2 images and metadata☆48Updated last year
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆39Updated 4 months ago
- ☆37Updated 2 years ago
- BIA Bob is a Jupyter+LLM-based assistant for interacting with image data and for working on Bio-image Analysis tasks.☆130Updated 6 months ago
- computer vision models for single-cell phenotyping☆87Updated this week
- Self-supervised models for encoding protein localization patterns from microscopy images☆80Updated 6 months ago
- scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images☆105Updated last week
- multimodal whole slide image registration in a graph structure☆100Updated last year
- Raw format to OME-TIFF converter☆56Updated 2 weeks ago
- Interactive visualization and sharing of cell tracking data in the browser☆45Updated last month
- comseg☆24Updated last year
- ☆27Updated last year
- A plugin to visualise 3D spatial single cell omics☆20Updated 3 months ago
- Multiple-choice microscopy pipeline☆145Updated last week
- Interactive visualization of spatial omics data☆75Updated last week
- ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration☆162Updated last week
- Deconvolution of widefield microscopy images and generation of point spread functions☆58Updated last month