fish-quant / big-fish
Toolbox for the analysis of smFISH images.
☆59Updated last year
Alternatives and similar repositories for big-fish:
Users that are interested in big-fish are comparing it to the libraries listed below
- Notebooks to illustrate how BigFISH is working.☆13Updated 2 years ago
- A scalable machine learning pipeline for probe specificity prediction.☆14Updated last year
- EASI-FISH analysis pipeline for spatial transcriptomics☆33Updated 4 months ago
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆35Updated last year
- Tool for precise, interactive, fast and scalable FISH spot detection☆48Updated last month
- Interactive visualization of spatial omics data☆51Updated this week
- The 2023 version of cellPLATO☆14Updated 4 months ago
- Matlab software for the analysis of MERFISH data and the construction of MERFISH probes.☆50Updated 3 years ago
- ☆10Updated 4 years ago
- ☆68Updated 3 months ago
- Deep learning based spot detection for FISH images.☆21Updated 7 months ago
- ☆30Updated last year
- Image registration (alignment) software for large microscopy images☆24Updated last year
- Spatial Single-Cell Analysis Toolkit☆86Updated last month
- MERlin is an extensible analysis pipeline applied to decoding MERFISH data☆35Updated 3 years ago
- scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images☆42Updated this week
- A self-explanatory, hands-on intro to bioimage analysis in python. Slightly outdated but still much liked by learners.☆97Updated 2 years ago
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆44Updated 8 months ago
- ☆29Updated 10 months ago
- Multiple-choice microscopy pipeline☆123Updated 2 weeks ago
- ☆27Updated 5 months ago
- Deconvolution of widefield microscopy images and generation of point spread functions☆45Updated last week
- Integrated pipeline for multiplexed image analysis☆84Updated this week
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆28Updated last month
- An automatic deep learning algorithm for spot detection in fluorescence microscopy images.☆18Updated 2 months ago
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆33Updated 10 months ago
- Multiple file format reading directly into napari using pure Python☆35Updated 8 months ago
- Pure Python library for reading NIS Elements ND2 images and metadata☆46Updated 2 months ago
- TissUUmaps is a browser-based tool for fast visualization and exploration of millions of data points overlaying a tissue sample. TissUUma…☆51Updated last month
- comseg☆19Updated last month