<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Set "step 1” above the histogram in the Volume Viewer window to display the full resolution of the data. If step is 2 that means only every other density map grid point is shown along each axis. The step gets set automatically to values greater than 1 when the map is large to avoid slowing down the graphics (rotating, zooming…). The initial step it chooses is controlled by the volume viewer menu Features / Data Display Options… , “Adjust step to show at most [N] Mvoxels”.<div class=""><br class=""></div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>Tom</div><div class=""><br class=""><div><blockquote type="cite" class=""><div class="">On Mar 16, 2017, at 11:41 AM, Andrea Fera <<a href="mailto:andrea.fera@gmail.com" class="">andrea.fera@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><div class="gmail_default" style="font-size: small;">Hi Tom!</div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;">Tank you for your information. </div><div class="gmail_default" style="font-size: small;">Let me try to explain better what I asked.</div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;">What I seem to have revised is that the virtual sections of my maps have a much higher resolution than the rendered images by Chimera. </div><div class="gmail_default" style="font-size: small;">This should be because, evidently, I didn't understand yet how to control the default smoothing and/or binning in the volume viewer, of which I used until now the default value. </div><div class="gmail_default" style="font-size: small;">Can you tell me how to do, or what to vary?</div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;">Thank you for the tip about using two colors in the rendering. Going to try immediately.</div><div class="gmail_default" style="font-size: small;">Thanks,</div><div class="gmail_default" style="font-size: small;">Andrea</div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;"><br class=""></div></div><div class="gmail_extra" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;"><br clear="all" class=""><div class=""><div class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><font size="1" class=""><div class=""><div style="font-size: small;" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><font size="1" class=""><div class=""><font size="1" class="">--</font></div>Andrea Fera, PhD – [Senior Research Scientist]</font><div class=""><div class=""><font size="1" class="">Advanced Molecular Imaging ; DUNS 824-XXX-XXX</font><font size="1" class=""><br class=""></font></div><div class=""><font size="1" class="">U<div style="display: inline;" class="">nit for Cytoskeletal Dynamics , NICHD, National Institute of Health</div></font></div><div class=""><font size="1" class=""><div style="display: inline;" class=""></div>Email: <a href="mailto:andrea.fera@gmail.com" target="_blank" style="color: rgb(17, 85, 204);" class="">andrea.fera@gmail.com</a> </font><br class=""></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div><br style="font-size: small;" class=""></div></font></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div><br class=""><div class="gmail_quote">On 16 March 2017 at 14:28, Tom Goddard<span class="Apple-converted-space"> </span><span dir="ltr" class=""><<a href="mailto:goddard@sonic.net" target="_blank" class="">goddard@sonic.net</a>></span><span class="Apple-converted-space"> </span>wrote:<br class=""><blockquote class="gmail_quote" style="margin: 0px 0px 0px 0.8ex; border-left-width: 1px; border-left-color: rgb(204, 204, 204); border-left-style: solid; padding-left: 1ex;"><div style="word-wrap: break-word;" class="">Not sure what you are asking. You can do Gaussian filtering to smooth a map, or binning to average 2x2x2 voxels together producing a smaller smoother map using the Volume Filter tool.<div class=""><br class=""></div><div class="">To color “solid” style map rendering different colors at different data values click the nodes on the yellow line on the volume viewer histogram and then click the color button below the histogram to change the colors.<br class=""><div class=""><br class=""></div><div class=""><span class="m_-5961967716397396643Apple-tab-span" style="white-space: pre-wrap;"> </span>Tom</div><div class=""><br class=""></div><div class=""><br class=""><div class=""><blockquote type="cite" class=""><div class="">On Mar 15, 2017, at 7:49 PM, Andrea Fera wrote:</div><br class="m_-5961967716397396643Apple-interchange-newline"><div class=""><div dir="ltr" class=""><div class="gmail_default" style="font-size: small;">Dear Tom,</div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;">How are you?</div><div class="gmail_default" style="font-size: small;">I am using Chimera more and more recently, and I have come to the point where I need to be able to control the amount of smoothing and/or binning that it inserts passing from the virtual sections to the rendering.</div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;">Could you please send me some information on where I could look for this information?</div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;">Another, related, thing. Is there a way that I can color in red or brighter color the part of the rendering including voxels below (or above) a certain threshold value?</div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;">I hope that I am not asking anything too strange.</div><div class="gmail_default" style="font-size: small;">Especially the first thing would help me greatly.</div><div class="gmail_default" style="font-size: small;"><br class=""></div><div class="gmail_default" style="font-size: small;">Thank you,</div><div class="gmail_default" style="font-size: small;">Andrea</div><span class="HOEnZb"><font color="#888888" class=""><div class="gmail_default" style="font-size: small;"><br class=""></div><div class=""><div class="m_-5961967716397396643m_-2833064248451757055gmail_signature" data-smartmail="gmail_signature"><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><font size="1" class=""><div class=""><div style="font-size: small;" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class=""><font size="1" class=""><div class=""><font size="1" class="">--</font></div>Andrea Fera, PhD – [Senior Research Scientist]</font><div class=""><div class=""><font size="1" class="">Advanced Molecular Imaging ; DUNS 824-XXX-XXX</font><font size="1" class=""><br class=""></font></div><div class=""><font size="1" class="">U<div style="display: inline;" class="">nit for Cytoskeletal Dynamics , NICHD, National Institute of Health</div></font></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></font></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></font></span></div></div></blockquote></div></div></div></div></blockquote></div></div></div></blockquote></div><br class=""></div></body></html>