<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="">Hi Stephan,<div class=""><br class=""></div><div class="">Alternatively, generating a gradient between two colors is relatively easy in common software used to draw figures (PowerPoint, Illustrator or what have you), so you can make the color key this way. In PowerPoint, this can be done by drawing a rectangle and following the instructions here to color the rectangle with a gradient: <a href="https://support.microsoft.com/en-us/office/add-a-gradient-color-to-a-shape-11cf6392-723c-4be8-840a-b2dab4b2ba3e" class="">https://support.microsoft.com/en-us/office/add-a-gradient-color-to-a-shape-11cf6392-723c-4be8-840a-b2dab4b2ba3e</a> </div><div class=""><br class=""></div><div class="">When you apply the coloring by map value in ChimeraX, the log window will report something like this: Map values for surface "surface": minimum 3.279, mean 3.556, maximum 4.327</div><div class=""><br class=""></div><div class="">You can then use these numbers to label the low end, middle and high end of the color key you made (in PowerPoint, you can do this by following the "Create a custom gradient" section of the documentation I pointed to above). It is very easy with a three-color gradient like blue-white-red (three colors, three values to map to the ends and middle of the gradient).</div><div class=""><br class=""></div><div class="">It is probably a bit trickier to do with a rainbow or other multi-color gradient, because I don’t see any way to ascertain that the gradient generated in the figure-drawing program has the same "slope" as the one ChimeraX will use to paint your map. And if the color key doesn’t match what’s painted on the map, well it’s useless. A rainbow gradient is generally best avoided anyway, since it is not readable at all for color-blind readers, and often misleading because of the bright yellow (falsely conveying sharp changes in the data you are depicting with the color gradient, when the changes are actually smooth/continuous).</div><div class=""><div class=""><br class="webkit-block-placeholder"></div><div class="">I hope this helps,</div><div class=""><br class=""></div><div 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;">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>
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<div><br class=""><blockquote type="cite" class=""><div class="">On 25 Jun 2020, at 17:27, Tetter Stephan <<a href="mailto:tetterst@org.chem.ethz.ch" class="">tetterst@org.chem.ethz.ch</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div style="caret-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; text-decoration: none;" class=""><div dir="auto" class="">Thanks, I' try that then<div class=""><br class=""></div><div class="">Stephan</div></div><br class=""><br class="">-------- Ursprüngliche Nachricht --------<br class="">Von: Elaine Meng <<a href="mailto:meng@cgl.ucsf.edu" class="">meng@cgl.ucsf.edu</a>><br class="">Datum: Do., 25. Juni 2020, 17:25<br class="">An: Tetter Stephan <<a href="mailto:tetterst@org.chem.ethz.ch" class="">tetterst@org.chem.ethz.ch</a>><br class="">Cc: <a href="mailto:chimerax-users@cgl.ucsf.edu" class="">chimerax-users@cgl.ucsf.edu</a><br class="">Betreff: Re: [chimerax-users] Local resolution legend<br class=""></div><font size="2" style="caret-color: rgb(0, 0, 0); font-family: Helvetica; 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; text-decoration: none;" class=""><span style="font-size: 10pt;" class=""><div class="PlainText">Hi Stephan,<br class="">Sorry, ChimeraX does not have a color key tool yet. You could make an image of the color key separately in Chimera as described in this recent post, even if you make the structure figure in ChimeraX (for example to use some of the lighting options that are only in ChimeraX).<br class=""><<a href="http://www.rbvi.ucsf.edu/pipermail/chimerax-users/2019-March/000452.html" class="">http://www.rbvi.ucsf.edu/pipermail/chimerax-users/2019-March/000452.html</a>><br class=""><br class="">We have a list of some of those missing features on the ChimeraX download page, in case you wanted to see what else is on the list. <span class="Apple-converted-space"> </span><br class=""><<a href="http://www.rbvi.ucsf.edu/chimerax/download.html" class="">http://www.rbvi.ucsf.edu/chimerax/download.html</a>><br class=""><br class="">Best,<br class="">Elaine<br class="">-----<br class="">Elaine C. Meng, Ph.D. <span class="Apple-converted-space"> </span><br class="">UCSF Chimera(X) team<br class="">Department of Pharmaceutical Chemistry<br class="">University of California, San Francisco<br class=""><br class=""><br class="">> On Jun 25, 2020, at 7:52 AM, Tetter Stephan <<a href="mailto:tetterst@org.chem.ethz.ch" class="">tetterst@org.chem.ethz.ch</a>> wrote:<br class="">><span class="Apple-converted-space"> </span><br class="">> Dear ChimeraX Users and Developers,<span class="Apple-converted-space"> </span><br class="">> I manage to color my cryoEM maps by local resolution, but can't figure out how to display a scale bar of the color code. Any ideas? Or do I have to go back to Chimera for this?<span class="Apple-converted-space"> </span><br class="">> Thanks,<span class="Apple-converted-space"> </span><br class="">> Stephan<br class=""><br class=""></div></span></font><span style="caret-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; text-decoration: none; float: none; display: inline !important;" class=""></span><span style="caret-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; text-decoration: none; float: none; display: inline !important;" class="">_______________________________________________</span><br style="caret-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; text-decoration: none;" class=""><span style="caret-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; text-decoration: none; float: none; display: inline !important;" class="">ChimeraX-users mailing list</span><br style="caret-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; text-decoration: none;" class=""><span style="caret-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; text-decoration: none; float: none; display: inline !important;" class=""><a href="mailto:ChimeraX-users@cgl.ucsf.edu" class="">ChimeraX-users@cgl.ucsf.edu</a></span><br style="caret-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; text-decoration: none;" class=""><span style="caret-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; text-decoration: none; float: none; display: inline !important;" class="">Manage subscription:</span><br style="caret-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; text-decoration: none;" class=""><span style="caret-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; text-decoration: none; float: none; display: inline !important;" class=""><a href="https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users" class="">https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users</a></span></div></blockquote></div><br class=""></div></body></html>