wiggins-lab / SuperSeggerLinks
A completely automated MATLAB-based trainable image cell segmentation, fluorescence quantification and analysis suite, particularly well suited for high-throughput time lapse fluorescence microscopy of in vivo bacterial cells.
☆33Updated 4 years ago
Alternatives and similar repositories for SuperSegger
Users that are interested in SuperSegger are comparing it to the libraries listed below
Sorting:
- A self-explanatory, hands-on intro to bioimage analysis in python. Slightly outdated but still much liked by learners.☆98Updated 2 years ago
- Toolbox for the analysis of smFISH images.☆68Updated last year
- EASI-FISH analysis pipeline for spatial transcriptomics☆35Updated 10 months ago
- LaTeX templates for manuscripts. bioRxiv preprint and journal submission templates. For use on Overleaf.☆100Updated 2 months ago
- MERlin is an extensible analysis pipeline applied to decoding MERFISH data☆35Updated 4 years ago
- A Python toolbox for quantitative, reproducible flow cytometry analysis☆203Updated last week
- A scalable machine learning pipeline for probe specificity prediction.☆14Updated last year
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆46Updated 3 months ago
- FlowSOM algorithm in Python, using self-organizing maps and minimum spanning tree for visualization and interpretation of cytometry data☆33Updated 3 years ago
- MS Word template for styling a manuscript for a bioRxiv submission☆40Updated 6 years ago
- Matlab software for the analysis of MERFISH data and the construction of MERFISH probes.☆50Updated 4 years ago
- Find profile pairs and compute metrics between them.☆19Updated 3 weeks ago
- This repository contains the code used for the paper "Molecular Atlas of the Adult Mouse Brain".☆17Updated 4 years ago
- A Python Shiny project with Joachim Goedhart☆20Updated last year
- Tools and scripts for EASI-FISH image data analysis☆17Updated 2 years ago
- ☆12Updated 4 years ago
- Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…☆36Updated 2 weeks ago
- An automatic deep learning algorithm for spot detection in fluorescence microscopy images.☆22Updated 3 months ago
- This is the repository for a Python bioimage analysis course which establishes the fundamentals of image analysis in the context of biolo…☆135Updated 5 years ago
- Python Jupyter notebooks for BioImageAnalysis, GPU-accelerated image processing, bio-image data science and more☆148Updated last week
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆38Updated 2 weeks ago
- NEUBIAS Academy @Home: Interactive Bioimage Analysis with Python and Jupyter☆63Updated 2 years ago
- Lectures for a napari training course☆51Updated 2 years ago
- The art of using t-SNE for single-cell transcriptomics☆129Updated 10 months ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆55Updated 3 months ago
- Python Flow Cytometry Calibration Library☆52Updated 5 months ago
- scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images☆89Updated 2 weeks ago
- InMoose is the INtegrated Multi Omic Open Source Environment. It is a collection of tools for the analysis of omic data.☆105Updated last month
- Image registration (alignment) software for large microscopy images☆25Updated last year
- quantixed FIJI update site☆16Updated this week