<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="">
Hello,
<div class=""><br class="">
</div>
<div class="">What do you mean by "a coot view of map"? If you want to display the map as a blue mesh (the default style in Coot) instead of a grey surface (the default style in ChimeraX), you can use the volume viewer to adjust the display options of your
map. There is a color picker, and a dropdown menu to choose a display style.</div>
<div class=""><br class="">
</div>
<div class="">See <a href="https://www.cgl.ucsf.edu/chimerax/docs/user/tools/volumeviewer.html" class="">https://www.cgl.ucsf.edu/chimerax/docs/user/tools/volumeviewer.html</a></div>
<div class=""><br class="">
</div>
<div class="">You can get the same result with the following commands:</div>
<div class=""><br class="">
</div>
<div class="">
<div class="">volume #1 style mesh</div>
<div class="">volume #1 color blue</div>
</div>
<div class=""><br class="">
</div>
<div class="">assuming model #1 is your map, adjust accordingly.</div>
<div class=""><br class="">
</div>
<div class="">If this shade of blue is not exactly the same one as in Coot, you might find a closer one here: <a href="https://www.cgl.ucsf.edu/chimerax/docs/user/commands/colornames.html#builtin" class="">https://www.cgl.ucsf.edu/chimerax/docs/user/commands/colornames.html#builtin</a></div>
<div class=""><br class="">
</div>
<div class="">I hope this helps,<br class="">
<div class="">
<div dir="auto" style="caret-color: rgb(0, 0, 0); color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">
<div dir="auto" style="caret-color: rgb(0, 0, 0); color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">
<div dir="auto" style="caret-color: rgb(0, 0, 0); color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">
<div dir="auto" style="caret-color: rgb(0, 0, 0); color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">
<div dir="auto" style="caret-color: rgb(0, 0, 0); color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">
<div style="color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">
<div style="color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">
<div style="color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">
<div style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">
<div style="color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px;">
<br class="Apple-interchange-newline">
Guillaume</div>
<div style="color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px;">
<br class="">
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
<div><br class="">
<blockquote type="cite" class="">
<div class="">On 23 Jan 2023, at 08:14, Cryo EM via ChimeraX-users <<a href="mailto:chimerax-users@cgl.ucsf.edu" class="">chimerax-users@cgl.ucsf.edu</a>> wrote:</div>
<br class="Apple-interchange-newline">
<div class="">
<div class="">
<div dir="ltr" class="">Hi everyone,
<div class=""><br class="">
</div>
<div class="">Does anyone know of a command for getting a coot view of map in ChimeraX? I remember seeing it in chimera, so I guess there should be something of such sort in ChimeraX too?</div>
<div class=""><br class="">
</div>
<div class="">Regards and thanks</div>
</div>
<title class="">Page Title</title>
<p class=""><br class="">
</p>
<div style="background-color: rgb(255, 235, 156); width: 100%; border: 1pt solid rgb(156, 101, 0); padding: 2pt; font-size: 10pt; line-height: 12pt; font-family: Calibri, serif, EmojiFont; text-align: left;" class="">
<span style="color:#9C6500" class="">VARNING:</span> Klicka inte på länkar och öppna inte bilagor om du inte känner igen avsändaren och vet att innehållet är säkert.<br class="">
<span style="color:#9C6500" class="">CAUTION:</span> Do not click on links or open attachments unless you recognise the sender and know the content is safe.</div>
</div>
_______________________________________________<br class="">
ChimeraX-users mailing list<br class="">
<a href="mailto:ChimeraX-users@cgl.ucsf.edu" class="">ChimeraX-users@cgl.ucsf.edu</a><br class="">
Manage subscription:<br class="">
https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users<br class="">
</div>
</blockquote>
</div>
<br class="">
</div>
<!DOCTYPE html>
<title>Page Title</title>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
När du har kontakt med oss på Uppsala universitet med e-post så innebär det att vi behandlar dina personuppgifter. För att läsa mer om hur vi gör det kan du läsa här: http://www.uu.se/om-uu/dataskydd-personuppgifter/
<br>
<br>
E-mailing Uppsala University means that we will process your personal data. For more information on how this is performed, please read here: http://www.uu.se/en/about-uu/data-protection-policy
</body>
</html>