<html><head><meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">Ah right, thanks Ricardo!<div class=""><br class=""></div><div class="">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).</div><div class=""><br class=""></div><div class="">Cheers</div><div class="">Oli</div><div class=""><div><br class=""><blockquote type="cite" class=""><div class="">On May 26, 2018, at 3:35 PM, Ricardo Righetto <<a href="mailto:ricardorighetto@gmail.com" class="">ricardorighetto@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class=""><div class="">Dear Oli,</div><div class=""><br class=""></div><div class="">The d99 criterion is available in the phenix.mtriage program.</div><div class=""><br class=""></div><div class="">Best wishes,<br class=""></div></div><div class="gmail_extra"><br clear="all" class=""><div class=""><div class="gmail_signature" data-smartmail="gmail_signature"><br class="">--<br class="">Ricardo Diogo Righetto<br class=""></div></div>
<br class=""><div class="gmail_quote">2018-05-26 20:44 GMT+02:00 Oliver Clarke <span dir="ltr" class=""><<a href="mailto:olibclarke@gmail.com" target="_blank" class="">olibclarke@gmail.com</a>></span>:<br class=""><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Hi,<br class="">
<br class="">
I think the “d99” criterion described in this preprint (<a href="https://www.biorxiv.org/content/early/2018/03/14/279844" rel="noreferrer" target="_blank" class="">https://www.biorxiv.org/<wbr class="">content/early/2018/03/14/<wbr class="">279844</a>) 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).<br class="">
<br class="">
Is it available in any phenix package at present? The scripts site mentioned in the preprint (<a href="http://phenix-online.org/phenix_data/afonine/cryoem_validation/" rel="noreferrer" target="_blank" class="">http://phenix-online.org/<wbr class="">phenix_data/afonine/cryoem_<wbr class="">validation/</a>) is currently rather sparsely populated.<br class="">
<br class="">
(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?)<br class="">
<br class="">
Cheers<br class="">
Oli<br class="">
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