Teaching Material
From BioDIP
(Difference between revisions)
(→Course schedules: added link to 2022 course schedule) |
|||
| (127 intermediate revisions by 7 users not shown) | |||
| Line 1: | Line 1: | ||
| − | = | + | == Cool Videos we made for teaching and information == |
| − | + | [http://vimeo.com/user795818/videos/sort:oldest Videos at Vimeo (in HD)] | |
| − | + | These show Abbe's diffraction experiments (Peter Evennett), cool SPIM 3D reconstructions, and the effects of the confocal pinhole etc. | |
| − | = | + | == Light Microscopy == |
| − | == Basic | + | === BioDIP Microscopy Course === |
| − | === | + | * [[media:Microscopy_principles_guide.pdf|Basics of Microscopy (2008)]] |
| − | * [ | + | * [[media:Ibarra_how-to-set-koehler-illumination.pdf|Köhler Illumination (2008)]] |
| − | * [http:// | + | * [[media:Contrasting_techniques.pdf|Diffraction, Resolution and Contrasting Techniques (2008)]] |
| − | + | * [[media:Fluorescence_Imaging.pdf|Fluorescence Imaging (2008)]] | |
| − | == | + | * [[media:CCD_intro_2008_oct.pdf|CCD Imaging (2008)]] |
| − | === | + | * [[media:Digital_imaging_oct_2008.pdf|Digital Imaging (2008)]] |
| − | * [http:// | + | * [[media:Quant_imag_and_image_processing1108.pdf|Quantitative Imaging and Basic Image Processing (2008)]] |
| − | * [ | + | * [[media:FRET.pdf|FRET by Mike Lorenz (2009)]] |
| + | * [[media:FLIM.pdf|FLIM by Mike Lorenz (2009)]] | ||
| + | * [[media:How_to_do_FRET.pdf|How to do FRET by Mike Lorenz (2009)]] | ||
| + | * [[media:FLIM-FRET_data_examples.pdf|FLIM-FRET data examples by Mike Lorenz (2009)]] | ||
| + | ==== add-on ==== | ||
| + | * [[Gallery#PhD_Course|photos from the course]] | ||
| + | === Peter Evennett Microscopy Course === | ||
| + | * [[media:Evennett_oct2008_01_principles-of-microscopy.pdf|Principles of Light Microscopy]] | ||
| + | * [[media:Evennett_oct2008_02_lens-aberrations.pdf|Lens Aberrations ]] | ||
| + | * [[media:Evennett_oct2008_03_diffraction.pdf|Diffraction ]] | ||
| + | * [[media:Evennett_oct2008_04_contrast.pdf|Contrast]] | ||
| + | * [[media:Evennett_oct2008_05_polarised-light.pdf|Polarised Light]] | ||
| + | * [[media:Evennett_oct2008_06_interference-contrast.pdf|Interference Contrast]] | ||
| + | * [[media:Stereomicroscopes_notes.pdf|Stereomicroscopes]] | ||
| + | * [[media:Fluorescence_notes.pdf|Fluorescence Microscopy]] | ||
| + | * [[media:Fluorescence_basics.pdf| Basics of fluorescence Microscopy]] | ||
| + | * [[media:Confocal_notes.pdf|Confocal Microscopy]] | ||
| + | * [[media:Optical_Sectioning_ProsAndCons10-2009.pdf|Optical Sectioning Methods - pros and cons (LMF)]] | ||
| + | * [[media:DeconvolutionAndOpticalSectioning-prosandcons-11-2010.pdf|Deconvolution and Optical Sectioning - pros and cons-11-2010]] | ||
| + | * [[media:QuantitativeImagingPhDCourseFriday-10-2009.pdf| Quantitative Imaging and Image Processing/Analysis 10-2009 (IPF)]] | ||
| + | |||
| + | ==== add-on ==== | ||
| + | * [[Peter_Evennett_-_Abbe_Diffraction_Experiments|video by Peter Evennett: Abbe's diffraction experiments]] | ||
| + | * [[Gallery#Peter_Evennett|photos from the course]] | ||
| + | |||
| + | === Companies' Resources === | ||
| + | * [http://zeiss-campus.magnet.fsu.edu/index.html Zeiss Campus - Education in Microscopy and Digital Imaging - with flash tutorials] | ||
| + | * [http://www.olympusmicro.com/index.html Olympus Microscopy Resources] | ||
| + | * [http://www.microscopyu.com/tutorials/java/ Nikon's interactive Java tutorials and demonstrations for many light microscopy techniques] | ||
| + | * [[media:OpticalFilters_EssentialTools_08-12-09.pdf| Optical Filters - Essential Tools by Dr. Michael Sommerauer (AHF)]] | ||
| + | * [[media:OpticalFilters_SpecifyingFilters_08-12-09.pdf| Optical Filters - Specifying Filters by Dr. Michael Sommerauer (AHF)]] | ||
| + | |||
| + | === Other Resources === | ||
| + | * [http://micro.magnet.fsu.edu/primer/ Optical Microscopy Primer] | ||
| + | === Related Sections === | ||
| + | * [[Papers#Light_Microscopy|Papers]] | ||
| + | * [[Links#Microscopy_-_Infos_and_Introductions|Links]] | ||
| + | |||
| + | == Image Processing == | ||
| + | === Fiji: general resources === | ||
| + | * [[media:ImageJ_macro_cheatsheet.pdf|Fiji macro programming cheat sheet - updated Dec 2019]] | ||
| + | |||
| + | === IPF Image Processing Courses === | ||
| + | * [[media:2011-10-Basics_of_Imaging_Processing_Course.pdf|What you need to know about Image Analysis - updated Oct 2011]] | ||
| + | * [[media:QuantitativeColocAnalysis-10-2011.pdf|Quantitative Imaging for Colocalization Analysis (updated Oct 2011)]] | ||
| + | * [[media:Intro-fiji-and-macros.pdf|Introduction to Fiji and Macro Programming (updated Jul 2011)]] | ||
| + | * [http://fiji.sc/Category:Tutorials Fiji (is just ImageJ - batteries included) Tutorials] | ||
| + | |||
| + | ===General Image Processing reading material=== | ||
| + | *[http://swehsc.pharmacy.arizona.edu/exppath/micro/digimage_ethics.php Image manipulation ethics - Tutorial - avoid twisted pixels], and the [http://www.springerlink.com/content/00311qw26613m261/fulltext.pdf original article] | ||
| + | |||
| + | ==High Content Screening== | ||
| + | ===DIPP course from the TDS of the MPI-CBG=== | ||
| + | * [[media:Presentations_TDD_DIPP2011.zip|Presentations about multifactorial experimental design, automated microscopy and image analysis - updated Oct 2011]] | ||
| + | |||
| + | * [[media:Presentations_DIPP-course-TDS_2012_03.zip|Presentations about multifactorial experimental design, automated microscopy and image analysis - updated Mar 2012]] | ||
| + | |||
| + | == Other courses == | ||
| + | === Matlab === | ||
| + | * [[media:Matlab-Fundamentals.pdf|Matlab Fundamentals - December 2010]] | ||
| + | |||
| + | See also the handouts of the [http://www.lmc.ethz.ch/Teaching/matlab_course Matlab for biologists] course at the Light Microscopy Centre of the ETH Zürich and the [http://www.neural-circuits.org/teaching/programming-with-matlab materials] of the Matlab programming course for Biophysicists at Universidad Autónoma de Madrid. | ||
| + | |||
| + | == Course schedules == | ||
| + | |||
| + | * [[BasicCoursePhDProg - Basics in Light Microscopy - schedule June 2022]] | ||
| + | |||
| + | * [[BasicCoursePhDProg - Basics in Light Microscopy - schedule March 2020]] | ||
| + | |||
| + | * [[BasicCoursePhDProg - Basics in Light Microscopy - schedule April 2019]] | ||
| + | |||
| + | * [[BasicCoursePhDProg - Basics in Light Microscopy - schedule April 2018]] | ||
| + | |||
| + | * [[BasicCoursePhDProg - Peter Evennett - schedule September 2017]] | ||
| + | |||
| + | * [[BasicCoursePhDProg - Peter Evennett - schedule December 2016]] | ||
| + | |||
| + | * [[BasicCoursePhDProg - Peter Evennett - schedule April 2016]] | ||
| + | |||
| + | * [[BasicCoursePhDProg - Peter Evennett - schedule March 2015]] | ||
| + | |||
| + | * [[BasicCoursePhDProg - Peter Evennett - schedule October 2014]] | ||
| + | |||
| + | * [[BasicsCoursePhDprog-PeterEvennett - schedule March 2014]] | ||
| + | |||
| + | * [[BasicsCoursePhDprog-PeterEvennett - schedule Oct. 2013]] | ||
| + | |||
| + | * [[BasicsCoursePhDprog-PeterEvennetApril2013]] | ||
| + | |||
| + | * [[BasicsCoursePhDprog-PeterEvennetOctober2012]] | ||
| + | |||
| + | * [[BasicsCoursePhDprog-PeterEvennetApril2012]] | ||
| + | |||
| + | * [[BasicsCoursePhDprog-PeterEvennetOct2011-observed timing and needed materials]] | ||
| + | |||
| + | * [[BasicsCoursePhDprog-PeterEvennetMay2011-observed_timing]] | ||
| + | |||
| + | * [[BasicsCoursePhDprog-PeterEvennetMay2011]] | ||
| + | |||
| + | * [[PeterEvennettCourse04-2010|Peter Evennett PhD course schedule Apr 2010]] | ||
| + | |||
| + | * [[PhD_Course_Nov_09|PhD course schedule 2009 nov]] | ||
| + | |||
| + | * [[Peter_Evennett%27s_Course_Oct_09|Peter E course schedule 2009 oct]] | ||
Latest revision as of 12:37, 24 February 2022
Contents |
[edit] Cool Videos we made for teaching and information
Videos at Vimeo (in HD) These show Abbe's diffraction experiments (Peter Evennett), cool SPIM 3D reconstructions, and the effects of the confocal pinhole etc.
[edit] Light Microscopy
[edit] BioDIP Microscopy Course
- Basics of Microscopy (2008)
- Köhler Illumination (2008)
- Diffraction, Resolution and Contrasting Techniques (2008)
- Fluorescence Imaging (2008)
- CCD Imaging (2008)
- Digital Imaging (2008)
- Quantitative Imaging and Basic Image Processing (2008)
- FRET by Mike Lorenz (2009)
- FLIM by Mike Lorenz (2009)
- How to do FRET by Mike Lorenz (2009)
- FLIM-FRET data examples by Mike Lorenz (2009)
[edit] add-on
[edit] Peter Evennett Microscopy Course
- Principles of Light Microscopy
- Lens Aberrations
- Diffraction
- Contrast
- Polarised Light
- Interference Contrast
- Stereomicroscopes
- Fluorescence Microscopy
- Basics of fluorescence Microscopy
- Confocal Microscopy
- Optical Sectioning Methods - pros and cons (LMF)
- Deconvolution and Optical Sectioning - pros and cons-11-2010
- Quantitative Imaging and Image Processing/Analysis 10-2009 (IPF)
[edit] add-on
[edit] Companies' Resources
- Zeiss Campus - Education in Microscopy and Digital Imaging - with flash tutorials
- Olympus Microscopy Resources
- Nikon's interactive Java tutorials and demonstrations for many light microscopy techniques
- Optical Filters - Essential Tools by Dr. Michael Sommerauer (AHF)
- Optical Filters - Specifying Filters by Dr. Michael Sommerauer (AHF)
[edit] Other Resources
[edit] Related Sections
[edit] Image Processing
[edit] Fiji: general resources
[edit] IPF Image Processing Courses
- What you need to know about Image Analysis - updated Oct 2011
- Quantitative Imaging for Colocalization Analysis (updated Oct 2011)
- Introduction to Fiji and Macro Programming (updated Jul 2011)
- Fiji (is just ImageJ - batteries included) Tutorials
[edit] General Image Processing reading material
[edit] High Content Screening
[edit] DIPP course from the TDS of the MPI-CBG
[edit] Other courses
[edit] Matlab
See also the handouts of the Matlab for biologists course at the Light Microscopy Centre of the ETH Zürich and the materials of the Matlab programming course for Biophysicists at Universidad Autónoma de Madrid.
