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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Dear all, does anyone have matlab code to import SDT files generated with Becker- Hickl SPCM? I used to import ASCII files, but I am trying not to import SDT files generated with the FIFO Image method without success. Cheers, Alessandro |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi Alessandro, > does anyone have matlab code to import SDT files generated with Becker- > Hickl SPCM? I used to import ASCII files, but I am trying not to import SDT files generated with the FIFO Image method without success. You could use Bio-Formats (http://loci.wisc.edu/bio-formats), which can read many different file formats including SDT. Instructions for integrating Bio-Formats with MATLAB are available here: http://loci.wisc.edu/bio-formats/matlab And any questions you might have can be sent to the developers by following the instructions here: http://loci.wisc.edu/software/mailing-lists (Disclaimer: I am one of the developers of Bio-Formats.) Regards, -Melissa On Sat, Oct 23, 2010 at 05:37:30PM -0500, Alessandro Esposito wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > Dear all, > does anyone have matlab code to import SDT files generated with Becker- > Hickl SPCM? I used to import ASCII files, but I am trying not to import SDT files > generated with the FIFO Image method without success. > > Cheers, > > Alessandro |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** In the somewhat near future, I'll be teaching a microscopy course to Biology and Biochemistry undergraduates (juniors and seniors). I'm looking for a relatively inexpensive book (<$100, ideally) that will cover everything from brightfield to phase and from DIC to confocal microscopy. Extending into the realm of electron microscopy would be beneficial as well. In the past, I taught an electron microscopy course and used "Electron Microscopy: Principles and Techniques for Biologists." I'm looking for the light microscopy version of this book (which I loved!). Any ideas? Jeff Jeffery A. Bowen, PhD Professor of Biology Bridgewater State University Bridgewater, MA 02325 508-531-2098 [hidden email] |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** I've recommended Douglas Murphy's book Fundamentals of Light Microscopy and Electronic imaging for this sort of thing a few times before on this listserver. It's one of the best all round introductory books I've ever come across. Not sure about the cost though. John Oreopoulos On 2010-10-25, at 5:17 PM, Bowen, Jeffery wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > In the somewhat near future, I'll be teaching a microscopy course to Biology and Biochemistry undergraduates (juniors and seniors). I'm looking for a relatively inexpensive book (<$100, ideally) that will cover everything from brightfield to phase and from DIC to confocal microscopy. Extending into the realm of electron microscopy would be beneficial as well. > In the past, I taught an electron microscopy course and used "Electron Microscopy: Principles and Techniques for Biologists." I'm looking for the light microscopy version of this book (which I loved!). > Any ideas? > > Jeff > > Jeffery A. Bowen, PhD > Professor of Biology > Bridgewater State University > Bridgewater, MA 02325 > 508-531-2098 > [hidden email] |
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In reply to this post by Bowen, Jeffery
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** I like Optical Imaging Techniques in Cell Biology by Guy Cox. Best, Neeraj. Neeraj V. Gohad, Ph.D. Postdoctoral Fellow Okeanos Research Group Department of Biological Sciences 132 Long Hall Clemson University Clemson,SC-29634 Phone: 864-656-3597 Fax: 864-656-0435 Website: http://www.clemson.edu/okeanos -----Original Message----- From: Confocal Microscopy List [mailto:[hidden email]] On Behalf Of Bowen, Jeffery Sent: Monday, October 25, 2010 5:18 PM To: [hidden email] Subject: Microscopy Book(s) ***** To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** In the somewhat near future, I'll be teaching a microscopy course to Biology and Biochemistry undergraduates (juniors and seniors). I'm looking for a relatively inexpensive book (<$100, ideally) that will cover everything from brightfield to phase and from DIC to confocal microscopy. Extending into the realm of electron microscopy would be beneficial as well. In the past, I taught an electron microscopy course and used "Electron Microscopy: Principles and Techniques for Biologists." I'm looking for the light microscopy version of this book (which I loved!). Any ideas? Jeff Jeffery A. Bowen, PhD Professor of Biology Bridgewater State University Bridgewater, MA 02325 508-531-2098 [hidden email] |
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In reply to this post by Bowen, Jeffery
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi, Jeff Optimizing Light Microscopy for the Biological and Clinical Lab is probably just what you want, but is currently out of print. At this point, it is on the agenda for an update in early 2012. When would you be teaching your course? Barbara Foster, President and Sr. Consultant Microscopy/Microscopy Education 7101 Royal Glen Trail, Suite A McKinney TX 75070 P: (972)924-5310 Skype: fostermme W: www.MicroscopyEducation.com Working in confocal or fluorescence? Take part in our latest survey. Visit www.MicroscopyEducation.com for details. Survey has been extended to November 5th. At 03:18 PM 10/25/2010, Bowen, Jeffery wrote: >***** >To join, leave or search the confocal microscopy listserv, go to: >http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy >***** > >In the somewhat near future, I'll be teaching a microscopy course to >Biology and Biochemistry undergraduates (juniors and seniors). I'm >looking for a relatively inexpensive book (<$100, ideally) that will >cover everything from brightfield to phase and from DIC to confocal >microscopy. Extending into the realm of electron microscopy would >be beneficial as well. >In the past, I taught an electron microscopy course and used >"Electron Microscopy: Principles and Techniques for >Biologists." I'm looking for the light microscopy version of this >book (which I loved!). >Any ideas? > >Jeff > >Jeffery A. Bowen, PhD >Professor of Biology >Bridgewater State University >Bridgewater, MA 02325 >508-531-2098 >[hidden email] |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Another possibility is to make extensive use of the microscopy web site: http://micro.magnet.fsu.edu I have found it very useful in my course. One advantage is that it has many animations that can illustrate the dynamic processes. Joel On Mon, Oct 25, 2010 at 5:30 PM, Barbara Foster <[hidden email]> wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > Hi, Jeff > > Optimizing Light Microscopy for the Biological and Clinical Lab is probably > just what you want, but is currently out of print. At this point, it is on > the agenda for an update in early 2012. When would you be teaching your > course? > > Barbara Foster, President and Sr. Consultant > > Microscopy/Microscopy Education > 7101 Royal Glen Trail, Suite A > McKinney TX 75070 > P: (972)924-5310 Skype: fostermme > W: www.MicroscopyEducation.com > > Working in confocal or fluorescence? Take part in our latest survey. > Visit www.MicroscopyEducation.com for details. Survey has been extended > to November 5th. > > > > At 03:18 PM 10/25/2010, Bowen, Jeffery wrote: > >> ***** >> To join, leave or search the confocal microscopy listserv, go to: >> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy >> ***** >> >> In the somewhat near future, I'll be teaching a microscopy course to >> Biology and Biochemistry undergraduates (juniors and seniors). I'm looking >> for a relatively inexpensive book (<$100, ideally) that will cover >> everything from brightfield to phase and from DIC to confocal microscopy. >> Extending into the realm of electron microscopy would be beneficial as >> well. >> In the past, I taught an electron microscopy course and used "Electron >> Microscopy: Principles and Techniques for Biologists." I'm looking for the >> light microscopy version of this book (which I loved!). >> Any ideas? >> >> Jeff >> >> Jeffery A. Bowen, PhD >> Professor of Biology >> Bridgewater State University >> Bridgewater, MA 02325 >> 508-531-2098 >> [hidden email] >> > -- Joel B. Sheffield, Ph.D Department of Biology Temple University Philadelphia, PA 19122 Voice: 215 204 8839 e-mail: [hidden email] URL: http://astro.temple.edu/~jbs |
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In reply to this post by Barbara Foster
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi Jeff, As Joel suggests, I'm also not sure you really need a book as such, as so much is now available free on the web as pdf and on websites [and students gain most by being shown how to use the microscope and prepare suitable specimens] see: http://www.well.ox.ac.uk/external-website-links In particular the links under 'The optical microscope', e.g. Molecular Expression [& Nikon/Olympus]'s microscopy primer, Zeiss's 'Microscopy from the very beginning' pdf/website and Olympus's 'Basics of light microscopy image' pdf. There's also links at the Dunn School of pathology, which can be found via our 'reading list': http://www.well.ox.ac.uk/further-reading Plus there's the link there to the 'Molecular expressions' recommended book reading list. For cheaper [sub £30] optical microscopy paperbacks I'd normally have recommended the Royal Microscopy Society Handbooks, but I'm not sure which of the old ones are still available and they are rather dated now [a new series is apparently being produced]. http://www.rms.org.uk/publications/Books http://www.rms.org.uk/Resources/Royal%20Microscopical%20Society/RMS%20Handbo ok%20Series%20List.pdf e.g. Introduction to Light Microscopy 2nd Ed [1998: No. 42] S Bradbury 1859961215, Fluorescence Microscopy 2nd Ed [1997: No. 40] B Herman 1872748848 The only books I tend to buy these days are those about specific techniques for sample preparation e.g. Immunofluorescence, fluorescence in-situ hybridization [FISH]. You will need info on image analysis [e.g. MetaMorph, Image Pro Plus, ImageJ] and 3D reconstruction/deconvolution [e.g. Volocity] techniques. I also buy 'coffee table' books like 'Inside the body, Susan Greenfield', 'Heaven and Earth, David Malin' and 'Unseen Companions, Adrian Warren' (i.e. books with nice microscope images rather than on the theory & operation of the microscope itself). Regards Keith --------------------------------------------------------------------------- Dr Keith J. Morris, Molecular Cytogenetics and Microscopy Core, Laboratory 00/069 and 00/070, The Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford OX3 7BN, United Kingdom. Telephone: +44 (0)1865 287568 Email: [hidden email] Web-pages: http://www.well.ox.ac.uk/molecular-cytogenetics-and-microscopy -----Original Message----- From: Confocal Microscopy List [mailto:[hidden email]] On Behalf Of Barbara Foster Sent: 25 October 2010 22:30 To: [hidden email] Subject: Re: Microscopy Book(s) ***** To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi, Jeff Optimizing Light Microscopy for the Biological and Clinical Lab is probably just what you want, but is currently out of print. At this point, it is on the agenda for an update in early 2012. When would you be teaching your course? Barbara Foster, President and Sr. Consultant Microscopy/Microscopy Education 7101 Royal Glen Trail, Suite A McKinney TX 75070 P: (972)924-5310 Skype: fostermme W: www.MicroscopyEducation.com Working in confocal or fluorescence? Take part in our latest survey. Visit www.MicroscopyEducation.com for details. Survey has been extended to November 5th. At 03:18 PM 10/25/2010, Bowen, Jeffery wrote: >***** >To join, leave or search the confocal microscopy listserv, go to: >http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy >***** > >In the somewhat near future, I'll be teaching a microscopy course to >Biology and Biochemistry undergraduates (juniors and seniors). I'm >looking for a relatively inexpensive book (<$100, ideally) that will >cover everything from brightfield to phase and from DIC to confocal >microscopy. Extending into the realm of electron microscopy would >be beneficial as well. >In the past, I taught an electron microscopy course and used >"Electron Microscopy: Principles and Techniques for >Biologists." I'm looking for the light microscopy version of this >book (which I loved!). >Any ideas? > >Jeff > >Jeffery A. Bowen, PhD >Professor of Biology >Bridgewater State University >Bridgewater, MA 02325 >508-531-2098 >[hidden email] |
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In reply to this post by Bowen, Jeffery
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi Jeff, The book by "Douglas Murphy" has already been named. But I want to add some interesting (new) books: I enjoyed reading "Randy Wayne: Light and video microscopy" (Elsevier, Academic Press, ) beacause I feel the optical principles are described in more detail compared to Murphy's book. Also the "classical techniques" (generating contrast) are described here to a greater extent. Electron microscopy is missing though and for fluorescence microscopy only the basics are described. Nevertheless it's a good new alternative to Murphy's book. Another very nice book is the review series "G. Slunder and D.E. Wolf (eds.): Methods in cell biology, Volume 81: Digital Microscopy 3rd Edition". Here you'll find a focus on modern techniques, as well as (very) short introductions to microscopy basics. All chapters are written by well known experts in the field and most of them are well written and understandable when you start with some knowledge of video microscopy. For me the combination of the two books was a good choice. From the 2nd book I use single chapters as student material and I recommend the first one for general reading about microscopy. Oh and before I forget: take at look at this PDF http://www.olympusmicro.com/primer/opticalmicroscopy.html. It's free and a comprehensive guide to microscopy. Of course it's kinda short while covering many aspects, but maybe it's a good start. Regards, Roman Am 25.10.2010 23:17, schrieb Bowen, Jeffery: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > In the somewhat near future, I'll be teaching a microscopy course to Biology and Biochemistry undergraduates (juniors and seniors). I'm looking for a relatively inexpensive book (<$100, ideally) that will cover everything from brightfield to phase and from DIC to confocal microscopy. Extending into the realm of electron microscopy would be beneficial as well. > In the past, I taught an electron microscopy course and used "Electron Microscopy: Principles and Techniques for Biologists." I'm looking for the light microscopy version of this book (which I loved!). > Any ideas? > > Jeff > > Jeffery A. Bowen, PhD > Professor of Biology > Bridgewater State University > Bridgewater, MA 02325 > 508-531-2098 > [hidden email] -- -- Roman Veith Dipl.-Biol. Institut für physikalische und theoretische Chemie AG Biophysikalische Chemie Universität Bonn Wegelerstraße 12 53115 Bonn Tel-Nr.: 0228-733089 Fax-Nr.: 0228-739424 http://www.thch.uni-bonn.de/pc/kubitscheck/ |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** For transmitted light techniques, I would recommend Randy Wayne's book as well. The concepts are very well explained. For confocal there is none better than Alan Hibbs "Confocal Microscopy for Biologists". The name says it all. Hard to get everything in one book. carol :=:=:=:=:=:=:=:=:=:=:=:=:=:=:=:=:=:=:=:=:=: Carol Bayles, Manager Microscopy and Imaging Facility (MIF) Life Sciences Core Lab Center B46 Weill Hall 607-254-4860 607-254-6379 fax http://cores.lifesciences.cornell.edu Nanobiotechnology Center (NBTC) www.nbtc.cornell.edu Cornell University Ithaca NY 14853 -----Original Message----- From: Confocal Microscopy List [mailto:[hidden email]] On Behalf Of Roman Veith Sent: Tuesday, October 26, 2010 8:36 AM To: [hidden email] Subject: Re: Microscopy Book(s) ***** To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi Jeff, The book by "Douglas Murphy" has already been named. But I want to add some interesting (new) books: I enjoyed reading "Randy Wayne: Light and video microscopy" (Elsevier, Academic Press, ) beacause I feel the optical principles are described in more detail compared to Murphy's book. Also the "classical techniques" (generating contrast) are described here to a greater extent. Electron microscopy is missing though and for fluorescence microscopy only the basics are described. Nevertheless it's a good new alternative to Murphy's book. Another very nice book is the review series "G. Slunder and D.E. Wolf (eds.): Methods in cell biology, Volume 81: Digital Microscopy 3rd Edition". Here you'll find a focus on modern techniques, as well as (very) short introductions to microscopy basics. All chapters are written by well known experts in the field and most of them are well written and understandable when you start with some knowledge of video microscopy. For me the combination of the two books was a good choice. From the 2nd book I use single chapters as student material and I recommend the first one for general reading about microscopy. Oh and before I forget: take at look at this PDF http://www.olympusmicro.com/primer/opticalmicroscopy.html. It's free and a comprehensive guide to microscopy. Of course it's kinda short while covering many aspects, but maybe it's a good start. Regards, Roman Am 25.10.2010 23:17, schrieb Bowen, Jeffery: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > In the somewhat near future, I'll be teaching a microscopy course to Biology and Biochemistry undergraduates (juniors and seniors). I'm looking for a relatively inexpensive book (<$100, ideally) that will cover everything from brightfield to phase and from DIC to confocal microscopy. Extending into the realm of electron microscopy would be beneficial as well. > In the past, I taught an electron microscopy course and used "Electron Microscopy: Principles and Techniques for Biologists." I'm looking for the light microscopy version of this book (which I loved!). > Any ideas? > > Jeff > > Jeffery A. Bowen, PhD > Professor of Biology > Bridgewater State University > Bridgewater, MA 02325 > 508-531-2098 > [hidden email] -- -- Roman Veith Dipl.-Biol. Institut für physikalische und theoretische Chemie AG Biophysikalische Chemie Universität Bonn Wegelerstraße 12 53115 Bonn Tel-Nr.: 0228-733089 Fax-Nr.: 0228-739424 http://www.thch.uni-bonn.de/pc/kubitscheck/ |
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In reply to this post by Bowen, Jeffery
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Not a single book, but I like these sources: 1. Wayne, R., Light and Video Microscopy. 2008, San Diego: Academic Press. - does not cover everything, but has really good intro into optics and the LM techniques, and even uses phase vector diagrams to explain imaging of phase objects (Anorter book that does that is the old Slayter, E.M., Optical Methods in Biology. 1970, New York: Wiley-Interscience) 2. Murphy, D.B., Fundamentals of Light Microscopy and Electronic Imaging. 2001, New York: John Wiley & Sons, Inc. 3. Molecular Expressions web site at the Florida State University (http://www.microscopy.fsu.edu/) - great animations, and has some of the more specialized techniques not usually listed in textbooks. 4. Hibbs, A.R., Confocal Microscopy for Biologists. 2004, New York: Springer - covers confocal imaging in a very accessible manner. Stan Vitha Microscopy and Imaging Center Texas A&M University BSBW 119 College Station, TX 77843-2257 http://microscopy.tamu.edu On Mon, 25 Oct 2010 17:17:59 -0400, Bowen, Jeffery <[hidden email]> wrote: >***** >To join, leave or search the confocal microscopy listserv, go to: >http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy >***** > >In the somewhat near future, I'll be teaching a microscopy course to Biology and Biochemistry undergraduates (juniors and seniors). I'm looking for a relatively inexpensive book (<$100, ideally) that will cover everything from brightfield to phase and from DIC to confocal microscopy. Extending into the realm of electron microscopy would be beneficial as well. >In the past, I taught an electron microscopy course and used "Electron Microscopy: Principles and Techniques for Biologists." I'm looking for the light microscopy version of this book (which I loved!). >Any ideas? > >Jeff > >Jeffery A. Bowen, PhD >Professor of Biology >Bridgewater State University >Bridgewater, MA 02325 >508-531-2098 >[hidden email] |
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In reply to this post by Carol Bayles
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** There is an additional book on the horizon that I would like to bring your attention to. Scheduled for release in late November/Early December to be published by Springer is a text on Basic Confocal Microscopy edited by Bob Price and Jay Jerome. While the emphasis is on confocal imaging many of the chapters, including fluorescence microscopy, specimen preparation, labeling strategies, digital imaging, and data reconstruction and ethics are applicable to a wide range and types of microscopy. The table of contents is provided below. Table of Contents from "Basic Confocal Microscopy" Chapter 1 Introduction and Historical Perspective Chapter 2 The Theory of Fluorescence Chapter 3 Fluorescence Microscopy Chapter 4 Specimen Preparation Chapter 5 Labeling Considerations for Confocal Microscopy Chapter 6 Introduction to Digital Imaging for Confocal Microscopy Chapter 7 Digital Image Capture for Confocal Microscopy Chapter 8 Types of Confocal Instruments: Basic Principals and Advantages and Disadvantages Chapter 9 Setting the Operating Parameters Chapter 10 3D Reconstruction of Confocal Image Data Chapter 11 Ethics and Resources Glossary The book is currently available for pre-order on Amazon Bob Bob Price Research Professor USC School of Medicine 6439 Garner's Ferry Road Columbia, SC 29209 803-733-3392 (T) 803-733-3212 (F) 803-253-5822 (Admin Asst) [hidden email] -----Original Message----- From: Confocal Microscopy List [mailto:[hidden email]] On Behalf Of Microscopy and Imaging Facility Sent: Tuesday, October 26, 2010 9:08 AM To: [hidden email] Subject: Re: Microscopy Book(s) ***** To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** For transmitted light techniques, I would recommend Randy Wayne's book as well. The concepts are very well explained. For confocal there is none better than Alan Hibbs "Confocal Microscopy for Biologists". The name says it all. Hard to get everything in one book. carol :=:=:=:=:=:=:=:=:=:=:=:=:=:=:=:=:=:=:=:=:=: Carol Bayles, Manager Microscopy and Imaging Facility (MIF) Life Sciences Core Lab Center B46 Weill Hall 607-254-4860 607-254-6379 fax http://cores.lifesciences.cornell.edu Nanobiotechnology Center (NBTC) www.nbtc.cornell.edu Cornell University Ithaca NY 14853 -----Original Message----- From: Confocal Microscopy List [mailto:[hidden email]] On Behalf Of Roman Veith Sent: Tuesday, October 26, 2010 8:36 AM To: [hidden email] Subject: Re: Microscopy Book(s) ***** To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi Jeff, The book by "Douglas Murphy" has already been named. But I want to add some interesting (new) books: I enjoyed reading "Randy Wayne: Light and video microscopy" (Elsevier, Academic Press, ) beacause I feel the optical principles are described in more detail compared to Murphy's book. Also the "classical techniques" (generating contrast) are described here to a greater extent. Electron microscopy is missing though and for fluorescence microscopy only the basics are described. Nevertheless it's a good new alternative to Murphy's book. Another very nice book is the review series "G. Slunder and D.E. Wolf (eds.): Methods in cell biology, Volume 81: Digital Microscopy 3rd Edition". Here you'll find a focus on modern techniques, as well as (very) short introductions to microscopy basics. All chapters are written by well known experts in the field and most of them are well written and understandable when you start with some knowledge of video microscopy. For me the combination of the two books was a good choice. From the 2nd book I use single chapters as student material and I recommend the first one for general reading about microscopy. Oh and before I forget: take at look at this PDF http://www.olympusmicro.com/primer/opticalmicroscopy.html. It's free and a comprehensive guide to microscopy. Of course it's kinda short while covering many aspects, but maybe it's a good start. Regards, Roman Am 25.10.2010 23:17, schrieb Bowen, Jeffery: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > In the somewhat near future, I'll be teaching a microscopy course to Biology and Biochemistry undergraduates (juniors and seniors). I'm looking for a relatively inexpensive book (<$100, ideally) that will cover everything from brightfield to phase and from DIC to confocal microscopy. Extending into the realm of electron microscopy would be beneficial as well. > In the past, I taught an electron microscopy course and used "Electron Microscopy: Principles and Techniques for Biologists." I'm looking for the light microscopy version of this book (which I loved!). > Any ideas? > > Jeff > > Jeffery A. Bowen, PhD > Professor of Biology > Bridgewater State University > Bridgewater, MA 02325 > 508-531-2098 > [hidden email] -- -- Roman Veith Dipl.-Biol. Institut für physikalische und theoretische Chemie AG Biophysikalische Chemie Universität Bonn Wegelerstraße 12 53115 Bonn Tel-Nr.: 0228-733089 Fax-Nr.: 0228-739424 http://www.thch.uni-bonn.de/pc/kubitscheck/ --------------------------------------- This e-mail transmission, in its entirety and including all attachments, is intended solely for the use of the person or entity to whom it is addressed and may contain information, including health information, that is privileged, confidential, and the disclosure of which is governed by applicable law. If you are not the intended recipient, you are hereby notified that disclosing, distributing, copying or taking any action in relation to this e-mail is STRICTLY PROHIBITED. If you have received this e-mail in error, please notify the sender immediately and destroy the related message. |
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In reply to this post by Alessandro Esposito
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi Melissa, thank you for the reply. I had problems with 'bfopen.m'. I get a warning: Warning: C:\MATLAB7\work\loci_tools.jar already specified on static java path and then an error: ??? Undefined variable "loci" or class "loci.formats.ChannelFiller". Error in ==> bfopen at 43 r = loci.formats.ChannelFiller(); that I could not solve. I thought I asked previously information on this issue, but I checked now my sent emails and not found it... perhaps I always post- poned trying to solve this issue. I will try to post a message on loci mailing list, but I post the problem also here... just in case :) Cheers, Alessandro |
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In reply to this post by JOEL B. SHEFFIELD
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Does anyone have a favorite free/shareware image stitching program they'd like to share? I have never attempted it in ImageJ either, is there a plug in? I am only trying to stitch together a few images right to left, not in both directions. Thanks for anything you have to share. Christian |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** If you have Photoshop CS3 or more recent, it has a nice Photomerge option in the File menu. -Michael -----Original Message----- From: Confocal Microscopy List [mailto:[hidden email]] On Behalf Of Christian Sent: Monday, November 15, 2010 2:33 PM To: [hidden email] Subject: image stitching ***** To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Does anyone have a favorite free/shareware image stitching program they'd like to share? I have never attempted it in ImageJ either, is there a plug in? I am only trying to stitch together a few images right to left, not in both directions. Thanks for anything you have to share. Christian ------------------------------------------------------------ This email message, including any attachments, is for the sole use of the intended recipient(s) and may contain information that is proprietary, confidential, and exempt from disclosure under applicable law. Any unauthorized review, use, disclosure, or distribution is prohibited. If you have received this email in error please notify the sender by return email and delete the original message. Please note, the recipient should check this email and any attachments for the presence of viruses. The organization accepts no liability for any damage caused by any virus transmitted by this email. ================================= |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** I've had great success with the 2D/3D stitching plugin for ImageJ that is included in the FIJI package: http://pacific.mpi-cbg.de/wiki/index.php/Stitching_2D/3D On 15 November 2010 19:35, Cammer, Michael <[hidden email]>wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > If you have Photoshop CS3 or more recent, it has a nice Photomerge option > in the File menu. > -Michael > > -----Original Message----- > From: Confocal Microscopy List [mailto:[hidden email]] > On Behalf Of Christian > Sent: Monday, November 15, 2010 2:33 PM > To: [hidden email] > Subject: image stitching > > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > Does anyone have a favorite free/shareware image stitching program they'd > like to share? I have never attempted it in ImageJ either, is there a plug > in? > > I am only trying to stitch together a few images right to left, not in both > directions. > > Thanks for anything you have to share. > > Christian > > ------------------------------------------------------------ > This email message, including any attachments, is for the sole use of the > intended recipient(s) and may contain information that is proprietary, > confidential, and exempt from disclosure under applicable law. Any > unauthorized review, use, disclosure, or distribution is prohibited. If you > have received this email in error please notify the sender by return email > and delete the original message. Please note, the recipient should check > this email and any attachments for the presence of viruses. The organization > accepts no liability for any damage caused by any virus transmitted by this > email. > ================================= > |
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In reply to this post by Christian-103
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** We use FIJI (which is basically an image processing plugins package from ImageJ). The stitching plugins are very robust! Olivier Dupont-Therrien On 2010-11-15, at 14:32, Christian wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > Does anyone have a favorite free/shareware image stitching program they'd like to share? I have never attempted it in ImageJ either, is there a plug in? > > I am only trying to stitch together a few images right to left, not in both directions. > > Thanks for anything you have to share. > > Christian |
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In reply to this post by Pedro Almada
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** See also: http://www.xuvtools.org/doku.php Cheers On 16/11/2010, at 8:37 AM, Pedro Almada wrote: > > > I've had great success with the 2D/3D stitching plugin for ImageJ > that is > included in the FIJI package: > http://pacific.mpi-cbg.de/wiki/index.php/Stitching_2D/3D > > On 15 November 2010 19:35, Cammer, Michael > <[hidden email]>wrote: > sts.umn.edu/cgi-bin/wa?A0=confocalmicroscopy >> ***** >> >> If you have Photoshop CS3 or more recent, it has a nice Photomerge >> option >> in the File menu. >> -Michael >> >> -----Original Message----- >> From: Confocal Microscopy List [mailto:[hidden email] >> ] >> On Behalf Of Christian >> Sent: Monday, November 15, 2010 2:33 PM >> To: [hidden email] >> Subject: image stitching >> >> ***** >> To join, leave or search the confocal microscopy listserv, go to: >> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy >> ***** >> >> Does anyone have a favorite free/shareware image stitching program >> they'd >> like to share? I have never attempted it in ImageJ either, is >> there a plug >> in? >> >> I am only trying to stitch together a few images right to left, not >> in both >> directions. >> >> Thanks for anything you have to share. >> >> Christian >> >> ------------------------------------------------------------ >> This email message, including any attachments, is for the sole use >> of the >> intended recipient(s) and may contain information that is >> proprietary, >> confidential, and exempt from disclosure under applicable law. Any >> unauthorized review, use, disclosure, or distribution is >> prohibited. If you >> have received this email in error please notify the sender by >> return email >> and delete the original message. Please note, the recipient should >> check >> this email and any attachments for the presence of viruses. The >> organization >> accepts no liability for any damage caused by any virus transmitted >> by this >> email. >> ================================= >> |
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In reply to this post by Christian-103
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** You can form a stack in ImageJ and then do Montage Mike -----Original Message----- From: Confocal Microscopy List [mailto:[hidden email]] On Behalf Of Christian Sent: Monday, November 15, 2010 2:33 PM To: [hidden email] Subject: image stitching ***** To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Does anyone have a favorite free/shareware image stitching program they'd like to share? I have never attempted it in ImageJ either, is there a plug in? I am only trying to stitch together a few images right to left, not in both directions. Thanks for anything you have to share. Christian |
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In reply to this post by Mark Cannell
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi, On 11/15/2010 08:46 PM, Mark Cannell wrote: > > See also: > > http://www.xuvtools.org/doku.php XuvTools is neat because it can work manual or fully automatic, so you can always fine-tune if something goes wrong. The newest version (beta) can also read files via Bio-Formats library, so its worth looking at. It will only stitch "real" 3D though, so stacks with more than 4 planes. Thats a bug that the developers (meaning 'me') meant to fix for quite a while now... All the best, Mario > Cheers > > On 16/11/2010, at 8:37 AM, Pedro Almada wrote: >> >> >> I've had great success with the 2D/3D stitching plugin for ImageJ that is >> included in the FIJI package: >> http://pacific.mpi-cbg.de/wiki/index.php/Stitching_2D/3D >> >> On 15 November 2010 19:35, Cammer, Michael <[hidden email]>wrote: > >> sts.umn.edu/cgi-bin/wa?A0=confocalmicroscopy >>> ***** >>> >>> If you have Photoshop CS3 or more recent, it has a nice Photomerge option >>> in the File menu. >>> -Michael >>> >>> -----Original Message----- >>> From: Confocal Microscopy List [mailto:[hidden email]] >>> On Behalf Of Christian >>> Sent: Monday, November 15, 2010 2:33 PM >>> To: [hidden email] >>> Subject: image stitching >>> >>> ***** >>> To join, leave or search the confocal microscopy listserv, go to: >>> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy >>> ***** >>> >>> Does anyone have a favorite free/shareware image stitching program they'd >>> like to share? I have never attempted it in ImageJ either, is there a plug >>> in? >>> >>> I am only trying to stitch together a few images right to left, not in both >>> directions. >>> >>> Thanks for anything you have to share. >>> >>> Christian >>> >>> ------------------------------------------------------------ >>> This email message, including any attachments, is for the sole use of the >>> intended recipient(s) and may contain information that is proprietary, >>> confidential, and exempt from disclosure under applicable law. Any >>> unauthorized review, use, disclosure, or distribution is prohibited. If you >>> have received this email in error please notify the sender by return email >>> and delete the original message. Please note, the recipient should check >>> this email and any attachments for the presence of viruses. The organization >>> accepts no liability for any damage caused by any virus transmitted by this >>> email. >>> ================================= >>> > |
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