Re: [ccp4bb] [3dem] Which resolution?

I'd say that it depends on your state of knowledge, and on their I and sigma. - if you know the space group for sure before you do the measurement of the systematic absences, their I and sigma don't matter to you (because they don't influence your mental model of the experiment), so their inform

Re: [ccp4bb] A question of density

I actually use the word "noise" a lot, but I try to reserve it for things that change every time you measure them.  A "noise peak" in electron density would be one that changes if you re-collect the data.  "Noise" should also go away if you average enough data together.  I don't expect that is

Re: [ccp4bb] [3dem] Which resolution?

I'd say they are 1 bit each, since they are the answer to a yes-or-no question. -James Holton MAD Scientist On 2/27/2020 6:32 PM, Keller, Jacob wrote: How would one evaluate the information content of systematic absences? JPK On Feb 26, 2020 8:14 PM, James Holton wrote: In my opinion the th

Re: [ccp4bb] [3dem] Which resolution?

Well, in the example I made the individual atomic B factors, the Wilson B, and "true B-factor" were all the same thing.  Keeps it simple. But to be clear, yes: the B factors at the end of refinement are not the "true B-factors", they are our best estimation of them.  Given that no protein mode

Re: [ccp4bb] Catalina compatibility

And here:  https://www.mail-archive.com/ccp4bb@jiscmail.ac.uk/msg48104.html Best wishes, Jon Cooper. On Monday, 9 March 2020, 23:13:15 GMT, Jonathan Cooper <0c2488af9525-dmarc-requ...@jiscmail.ac.uk> wrote: I'm probably going to be beaten on this one, as you probably know, it has

Re: [ccp4bb] Catalina compatibility

I'm probably going to be beaten on this one, as you probably know, it has been discussed here recently:  https://www.mail-archive.com/ccp4bb@jiscmail.ac.uk/msg47716.html https://www.jiscmail.ac.uk/cgi-bin/webadmin?A2=CCP4BB;d908309.1911 The thing was to re-install Xquartz. I'm not a mac-person

[ccp4bb] Catalina compatibility

Dear all, I was wondering if anyone has updates or advice regarding software compatibility issues with the new Mac Catalina operating system. I tried installing several software packages on an iMac running Catalina and have not been able to get some programs (Coot and xdsgui, in particular) to

Re: [ccp4bb] Running CCP4_Blend on Mac

Hi David, Thank you so much for the reply. I tried giving /usr/local/bin/Rscript as a path. Still it so showing Dependency error: BLEND requires R. If I type R in terminal it is showing as the program is running, showing the current version. I tried looking for .exe files, but could no

[ccp4bb] PhD pattern-recognition-for-protein-crystallisation-strategies

Dear CCP4bb, Slightly off topic but perhaps of interest to students. Synopsis: The MARCO (MAchine Recognition of Crystallization Outcomes) project showed that automated image analysis can be used to classify experimental results, having a 94% correct classification rate. Work on a custom image

Re: [ccp4bb] [3dem] Which resolution?

Hi Alexis, A brief summary of the relevant points in the paper that Pavel mentioned (https://journals.iucr.org/d/issues/2020/03/00/ba5308 ): The paper is about how to estimate the amount of information gained by making a diffraction measure