Knowledge base BioImage Analysis
Bioimage analysis is the process by which one extracts numerical data from scientific images. A large number of software packages, methods, algorithms are available and allow for diverse types of analysis. The webpage biii.eu is a search engine, where one can find tools and information related to analysis.
NEUBIAS - the network of European Bioimage analysts: organises courses and conferences, provides funding, etc
Bioimage Data Analysis, 2016, edited by Kota Miura, Wiley. Open access text book about image analysis.
Analyzing fluorescence microscopy images with Fiji, Peter Bankhaed, open access handbook to get started with ImageJ/Fiji
Free, open source and cross platform
Distribution of ImageJ, including a bundle of plugins facilitating scientific image analysis.
Open platform for scientific image analysis
- Cell Profiler and Cell Profiler analyst
Software for measuring and analysing cell images. Cell profiler analyst provides an exploration and classification of large biological image sets.
Open community platform for Bioimage informatics. Visualisation, annotation, and quantification of bio imaging data.
tomographic reconstruction and for 3D reconstruction of EM serial sections and optical sections
Free versions of commercial software packages
open-source image analysis software
image viewer for common file formats like *.tif and *.jpg, provides simple processing and batch conversion, slide show etc.
- Leica LAS X Lite
free Leica software, can open *.lif and *.lei files, acquisition information are accessible
- Olympus FV Viewer
free Olympus software, can open *.oib and *.oif files from Fluoview Confocals
- Zeiss ZEN Lite
free version of Zeiss Zen software for viewing and processing images including *.lsm, *.czi formats