This section contains a curated selection of external links to help you improve your understanding of microscopy, experimental design, and image analysis.

General microscopy guidance

Bioimaging Guide (opens in a new window) – Practical guide to microscopy, from sample preparation to data analysis

Microscopy principles and techniques

MicroscopyU (Nikon) (opens in a new window) – Comprehensive resource covering basic and advanced microscopy techniques

Zeiss Campus (opens in a new window) – Educational materials focused on fluorescence microscopy

Experiment planning and fluorophore selection

FPBase (opens in a new window) – Database of fluorescent proteins and a powerful spectral viewer and setup planner

ThermoFisher Fluorescence SpectraViewer (opens in a new window) – Tool for visualizing and comparing fluorophore spectra

Nikon Resolution Calculator (opens in a new window) – Tool for estimating the resolving power of your imaging setup

Bioimage analysis

BioImage Book (opens in a new window) – Introduction to fundamental bioimage analysis workflows and tools

image.sc forum (opens in a new window) – Lively forum for bioimage analysis questions and discussions

Task-to-tools guide (opens in a new window) – Guide on tools selection for selected bioimage tasks

Robert Haase’s Youtube channel (opens in a new window) – Youtube channel with a series of videos covering basics of bioimage analysis, as well as more advanced topics

When to say ‘good enough’ (opens in a new window) – Blogpost from Beth Cimini on when to stop optimizing bioimage analysis workflow

Data storage and archivation

Data repository flowchart by Arzuv Čaryjeva (pptx) – Guide on how to select a repository for storing your data in a FAIR way

Presentations and course materials from MSC IEM

MSC IEM Zenodo repository (opens in a new window) – Repository containing materials from our courses and lectures