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http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal Dear All 1)How do we analyse the images of wound healing assay (migration assay)with metamorph software.The images are taken on the Axiovision 200M inverted microscope in the .zvi format. 2)Can we use the same software for cell spreading assay and how? 3)Which file format does metamorph support for analysing images? As even the suggested 16bit tiff images fail to open with the software sometimes. Please suggest. thanks regards Vaishali ____________________________________________________________________________________ Be a better friend, newshound, and know-it-all with Yahoo! Mobile. Try it now. http://mobile.yahoo.com/;_ylt=Ahu06i62sR8HDtDypao8Wcj9tAcJ |
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Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal I find using the Kymograph function (in the Stack menu) good for scratch assay analysis. You draw a line over the 'wound' that cells are migrating to and the Kymograph provides a representation of how fast cells move along the line filling the wound. For non-linear cell spreading an area measurement is usually easiest, you have to threshold or process the image so the cell area is distinguished from background (generating a binary image is best for this). You can then display the growth of area covered by cells over time in Integrated Morphometry Analysis or using the Region Measurements tool. If the images are calibrated then measure the square microns of area, otherwise it might be best to measure a % coverage. MetaMorph opens several different formats, to find them all you can use the File - Open option and there is a drop-down at the bottom that lists Image Types. I would suggest the 16-bit tiff images whenever you are analyzing data, but when you save the images from AxioVision (or wherever you take your images) make sure there is no compression being used. Steve -----Original Message----- From: Confocal Microscopy List [mailto:[hidden email]] On Behalf Of vaishali kailaje Sent: Monday, April 28, 2008 7:38 AM To: [hidden email] Subject: [CONFOCAL] analysis Search the CONFOCAL archive at http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal Dear All 1)How do we analyse the images of wound healing assay (migration assay)with metamorph software.The images are taken on the Axiovision 200M inverted microscope in the .zvi format. 2)Can we use the same software for cell spreading assay and how? 3)Which file format does metamorph support for analysing images? As even the suggested 16bit tiff images fail to open with the software sometimes. Please suggest. thanks regards Vaishali ____________________________________________________________________________________ Be a better friend, newshound, and know-it-all with Yahoo! Mobile. Try it now. http://mobile.yahoo.com/;_ylt=Ahu06i62sR8HDtDypao8Wcj9tAcJ |
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In reply to this post by vaishali kailaje
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http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal Dear all, Can anyone recommend some good movie making softwares? We would want to make movies and be able to tweak the movies using images acquired from our confocal microscopes. Thanks for all your help in advance. Best, Venkat |
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Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal
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Venkat, We use QuickTime Pro (US 29.99 for the Pro license last time I checked). With the Pro license, it is possible to import TIFF series or various movie formats, and convert them to Quick Time or other movie formats, with a variety of compressors, choice of frame rates, and image size. Quite flexible and not too expensive. We often use it together with ImageJ. -- Julio Vazquez Fred Hutchinson Cancer Research Center Seattle, WA 98109-1024 On Apr 28, 2008, at 11:56 AM, Venkat wrote:
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In reply to this post by Ramshesh, Venkat K
Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal If you're using Photoshop, Adobe ImageReady comes with it, I think, and is not bad. cheers, Rosemary Rosemary White [hidden email] CSIRO Plant Industry ph. 61 (0)2-6246 5475 GPO Box 1600 fax. 61 (0)2-6246 5334 Canberra, ACT 2601 Australia On 29/4/08 4:56 AM, "Venkat" <[hidden email]> wrote: > Search the CONFOCAL archive at > http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal > > Dear all, > > Can anyone recommend some good movie making softwares? We would want > to make movies and be able to tweak the movies using images acquired > from our confocal microscopes. Thanks for all your help in advance. > > Best, > Venkat |
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In reply to this post by Ramshesh, Venkat K
Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal Hi Venkat, If you have lots of money, Imaris and Volocity are very good. If you are looking for an open source free solution that you can even help in the development of, try http://www.BioimageXD.net (mac version has some issues in movie making which are now fixed for the next release, but the windows version has been working reliably in the latest release.) also imageJ can make 3D movies, if you can write a bit of macro language or even Java. cheers Dan On Apr 29, 2008, at 6:00 AM, CONFOCAL automatic digest system wrote: > > Date: Mon, 28 Apr 2008 14:56:55 -0400 > From: Venkat <[hidden email]> > Subject: Movie making software > > Search the CONFOCAL archive at > http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal > > Dear all, > > Can anyone recommend some good movie making softwares? We would > want > to make movies and be able to tweak the movies using images acquired > from our confocal microscopes. Thanks for all your help in advance. > > Best, > Venkat Dr. Daniel James White BSc. (Hons.) PhD Senior Microscopist / Image Processing and Analysis Light Microscopy Facility Max Planck Institute of Molecular Cell Biology and Genetics Pfotenhauerstrasse 108 01307 DRESDEN Germany New Mobile Number!!! +49 (0)15114966933 (German Mobile) +49 (0)351 210 2627 (Work phone at MPI-CBG) +49 (0)351 210 1078 (Fax MPI-CBG LMF) http://www.bioimagexd.net http://www.chalkie.org.uk [hidden email] ( [hidden email] ) |
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Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal
If you have little money, try the mighty Rad Video tools. It is free and lets you make movies from a series of tifs. You can change frame rate, size, file format and compression. The download website is http://www.radgametools.com/bnkdown.htm John Dan White wrote: Search the CONFOCAL archive at --
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Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal
VideoMach
(
http://gromada.com/download.html ) circa $30 or VirtualDub
(
http://www.virtualdub.org/index) free, or combination of both will
work perfectly well.
Michal Dr. Michal Opas Professor Department of Laboratory Medicine and Pathobiology University of Toronto 1 King's College Circle Medical Sciences Building, room 6326 Toronto, Ontario, M5S 1A8 Canada °°°°°°°°°°°°° phone: (416) 978-8947 (laboratory) (416) 971-2140 (office) fax: (416) 978-5959 email: [hidden email] homepage: http://www.utoronto.ca/mocell |
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In reply to this post by Rosemary.White
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http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal Cheap and cheerful (but windows only) Fast movie processor (FMP)- (just google it). Imports bitmaps/jpegs and various different output formats/compressions etc. Michelle On 29/4/08 00:37, "Rosemary White" <[hidden email]> wrote: > Search the CONFOCAL archive at > http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal > > If you're using Photoshop, Adobe ImageReady comes with it, I think, and is > not bad. > cheers, > Rosemary > > Rosemary White [hidden email] > CSIRO Plant Industry ph. 61 (0)2-6246 5475 > GPO Box 1600 fax. 61 (0)2-6246 5334 > Canberra, ACT 2601 > Australia > > > > On 29/4/08 4:56 AM, "Venkat" <[hidden email]> wrote: > >> Search the CONFOCAL archive at >> http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal >> >> Dear all, >> >> Can anyone recommend some good movie making softwares? We would want >> to make movies and be able to tweak the movies using images acquired >> from our confocal microscopes. Thanks for all your help in advance. >> >> Best, >> Venkat |
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In reply to this post by Ramshesh, Venkat K
Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal All the ones that have been mentioned are very useful. However, for annotating movies (drawing overlays on multiple frames, etc.) we ended up buying Adobe Premiere. |
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