Mini Map Aide: Difference between revisions

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Mini Map Aide is meant to be a completely minimal electron density map viewing aid that works on a residue-by-residue basis and could even be used by experimentalists for checking a structure in the final refinement rounds if the user has no computer access for some reason. To this end the bad regions could be recorded, ''e.g.'' by taking screen-shots, for later attention with a dedicated PC-based molecular graphics program, such as [https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/ Coot]. Despite its limitations, the aim is for ''mini map aide'' to be useful in research or as a teaching aid! All of the display calculations are done by a client-side script running in the user's web browser and neither the structure nor the map need to be uploaded to the server. They must, of course, be transferred to the phone beforehand by one or other means!

The map must be in CCP4 format and must either cover the protein molecule or fill an entire unit cell. The program should work with most of the maps which are held online in the [[Protein Data Bank]]. The steps of calculating an electron density map on a computer with the [https://www.ccp4.ac.uk/ CCP4 suite] installed are outlined in the online help provided at the [https://minimapai.de/minimaphelp.html mini map aide website]. If the reflection data are available in MTZ format, these may be uploaded to the mini map aide website for conversion to a map file which can then be downloaded to your device and then loaded into the program for display. I am very grateful to Marcin Wodjyr (CCP4/Global Phasing) for allowing me to use the program [https://gemmi.readthedocs.io/en/latest/utils.html#sf2map sf2map] from the [https://joss.theoj.org/papers/10.21105/joss.04200 gemmi suite] on the Mini Map Aide server for this purpose.

Mini Map Aide: Difference between revisions

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 Mini Map Aide is meant to be a completely minimal electron density map viewing aid that works on a residue-by-residue basis and could even be used by experimentalists for checking a structure in the final refinement rounds if the user has no computer access for some reason. To this end the bad regions could be recorded, ''e.g.'' by taking screen-shots, for later attention with a dedicated PC-based molecular graphics program, such as [https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/ Coot]. Despite its limitations, the aim is for ''mini map aide'' to be useful in research or as a teaching aid! All of the display calculations are done by a client-side script running in the user's web browser and neither the structure nor the map need to be uploaded to the server. They must, of course, be transferred to the phone beforehand by one or other means!
+The map must be in CCP4 format and must either cover the protein molecule or fill an entire unit cell. The program should work with most of the maps which are held online in the [[Protein Data Bank]]. The steps of calculating an electron density map on a computer with the [https://www.ccp4.ac.uk/ CCP4 suite] installed are outlined in the online help provided at the [https://minimapai.de/minimaphelp.html mini map aide website]. If the reflection data are available in MTZ format, these may be uploaded to the mini map aide website for conversion to a map file which can then be downloaded to your device and then loaded into the program for display. I am very grateful to Marcin Wodjyr (CCP4/Global Phasing) for allowing me to use the program [https://gemmi.readthedocs.io/en/latest/utils.html#sf2map sf2map] from the [https://joss.theoj.org/papers/10.21105/joss.04200 gemmi suite] on the Mini Map Aide server for this purpose.
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