[phenixbb] d99 resolution measure availability?
olibclarke at gmail.com
Sat May 26 13:44:28 PDT 2018
Ah right, thanks Ricardo!
I thought that might be the case, but there was nothing in the command line help or online docs to indicate it, and whenever I attempt to run phenix.mtriage, I get the error "Sorry: No box info (aka crystal symmetry) available”, even when I run it on the map generated by phenix.auto_sharpen. There also doesn’t seem to be any option to provide this info on the command line (except in the form of a model, I guess).
> On May 26, 2018, at 3:35 PM, Ricardo Righetto <ricardorighetto at gmail.com> wrote:
> Dear Oli,
> The d99 criterion is available in the phenix.mtriage program.
> Best wishes,
> Ricardo Diogo Righetto
> 2018-05-26 20:44 GMT+02:00 Oliver Clarke <olibclarke at gmail.com <mailto:olibclarke at gmail.com>>:
> I think the “d99” criterion described in this preprint (https://www.biorxiv.org/content/early/2018/03/14/279844 <https://www.biorxiv.org/content/early/2018/03/14/279844>) looks like a really interesting FSC-independent way to measure res in real space, and I’d like to give it a go on my maps (particularly those where I am suspicious of the FSC-based res based on map appearance, or where I suspect overfitting).
> Is it available in any phenix package at present? The scripts site mentioned in the preprint (http://phenix-online.org/phenix_data/afonine/cryoem_validation/ <http://phenix-online.org/phenix_data/afonine/cryoem_validation/>) is currently rather sparsely populated.
> (Also, I wonder whether a directional version of the d99 criterion might be useful to estimate anisotropic res in the case of a preferred orientation, analogous to the 3D-FSC approach of Yong-Zi Tan and Dmitry Lyumkis?)
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