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Microscopy - Infos and Introductions

Molecular Expressions Microscopy Primer: TIRF introduction link
  • Nyquist Calculator
    calculate the - according to Harry Nyquist - perfect sampling for your setup

Sample mounting

CCD cameras

  • Photometrics learning zone
    nice collection about all kind of information concerning CCD cameras. Note: Photometrics offers a cost free, 2-day camera course, which is run every 3 months in the UK

Spectral & Optical Data

Invitrogen Spectra Viewer link
Online Spectra Viewer: full setup for acquisition of eGFP link

Fluorochrome Spectra

Filter Specifications

Objective Data

Refractive Index

Measurements were performed at MPI-CBG LMF, with the J457 Automatic Refractometer (RUDOPLH) for each medium, in a temperature range between 10 and 60 Celsius degrees at 1 degree steps.

Free Software

µManager: main panel link
Fiji/ImageJ: colocalization analysis with automated threshold

Image Acquisition

  • µManager
    open source software package for imaging and control of automated microscopes, refer to the µManager documentation for configurations etc.
    (Windows, Mac OS, Linux)

Image Processing and Analysis

  • BioImageXD
    open-source image analysis software
    (cross platform)
  • Zeiss ZEN LE
    new free Zeiss software for viewing and processing *.lsm images
    (Windows XP 32bit, Windows 7 32/64 bit)
  • Zeiss LSM Image Browser
    traditional free Zeiss software, can open database (*.mdb) and images (*.lsm) including all comments and acquisition information
    (Windows only)
  • Leica LAS AF Lite
    free Leica software, can open *.lif and *.lei files, acquisition information are accessible
    (Windows XP 32bit only)
  • Olympus FV Viewer
    free Olympus software, can open *.oib and *.oif files from Fluoview Confocals
    (Windows XP 32bit only)
  • Zeiss Axiovision LE
    free version of the Axiovision software, able to open *.lsm files as well, nice batch export
    (Windows only)
  • IrfanView
    image viewer for common file formats like *.tif and *.jpg, provides simple processing and batch conversion, slide show etc.
    (Windows only)

Mailing Listserver

  • ImageJ Mailing List
    lots of discussions, good if you are interested in using ImageJ more advanced


TILL Photonics: iMIC link
  • okolab
    stage incubators, cage incubators
  • Ibidi
    single- and multi-well dishes with cover-slip bottom, stage incubator

Our Friends and contacts

Personal tools