We often use ImageJ for looking at electron diffraction images, and do indeed benefit from the plethora of tools it implements. The necessary tools to convert to and from formats that ImageJ understands are quite trivial, but we don’t have a plugin (yet?) nor have have played with anything approaching real-time viewing.
// Johan On Apr 28, 2015, at 7:08, Keller, Jacob <kell...@janelia.hhmi.org> wrote: > Has anybody tried imageJ/FIJI for looking at diffraction images? There are a > vast amount of processing tools therein, and it could make some things really > easy. I suspect one could look at the data by opening images as “raw” and > then specifying the properties of the image in the resultant menu. An x-ray > data plugin might be really powerful if it could use some of imageJ’s many > image-processing options. > > In this case, one can trivially do a “Gaussian blur” in any of three > dimensions, and one can set the degree of blur whilst seeing a real-time > preview. It’s actually an amazing—and completely free and > open-source—software package. > > JPK > > From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Harry > Powell > Sent: Tuesday, April 28, 2015 5:31 AM > To: CCP4BB@JISCMAIL.AC.UK > Subject: Re: [ccp4bb] PAD images > > Hi > > In iMosflm we automatically blur the zoomed out image for Pilatus (not yet > for Eiger or ADSC-PAD) to make it easier to see the spots on these images. > > It's also possible to sum up to 20 images (for viewing) in iMosflm (again, > for Pilatus). We'll add this functionality for the other detectors before the > next release... > > > On 27 Apr 2015, at 23:31, Bernhard Rupp (Hofkristallrat a.D.) wrote: > > > Hi Fellows, > > I wonder whether it's just me and my eyesight failing (or excessive internal > lubrication).... > > It seems that the art of looking at diffraction patterns and being able to > tell > a lot about modulation, superstructures, extinctions, etc. becomes kind of > useless > old fart stuff when dealing with PAD images. I can’t for my life see > interpretable patterns on frames where > the beamline autoprocessing delivers actual data sets. The absence of a > point spread function > etc that gave interpretable film-like images on IPs or CCDs, seems to be the > reason. > > A PAD pixel with 1000000 counts looks like one with 100 when viewed with the > low dynamic range of the displays > compared to the huge dynamic range of the detector. > > Is there somewhere in the process a humanly unusable composite image with a > point spread that > allows visual pre-processing, inspection, and interpretation despite a low > dynamic display range? > > Looking at the hklview or similar after processing is pointless (no pun > intended), because the stuff I might be > interested in is already processed away. > > Some humanly interpretable raw data images would be quite useful... > > Best regards, BR > ----------------------------------------------------------------- > Bernhard Rupp > 001 (925) 209-7429 > +43 (676) 571-0536 > b...@ruppweb.org > http://www.ruppweb.org/ > ----------------------------------------------------------------- > The man who follows the crowd will get > no further than the crowd. > The man who walks alone will find himself > in places where no one has been before. > ----------------------------------------------------------------- > > Harry > -- > Dr Harry Powell, MRC Laboratory of Molecular Biology, Francis Crick Avenue, > Cambridge Biomedical Campus, Cambridge CB2 0QH > Chairman of International Union of Crystallography Commission on > Crystallographic Computing > Chairman of European Crystallographic Association SIG9 (Crystallographic > Computing) Research Specialist @ Gonen Lab ____________________________________________________ Janelia Research Campus * 19700 Helix Drive Ashburn, VA 20147 * +1 (571) 209-4000 extension 3376
