Dear Group, I am new to Reconstruct tool. In my research, I need to align successive Nissl stained images. I am trying to follow the manual in aligning the...
Deepak, The size of the movement generated by pressing the arrow keys may depend on the pixel size of your section. Try increasing the value of the movement...
Dear John, Yep...it worked. Thanks a lot. Also, I would like to thank you for developing the tool. Deepak. ... depend on the pixel size of your section. Try...
Dear John, Just joined RECONSTRUCT with a specific question. We are preparing a full volume reconstruction surrounding a dendrite. We would like to be able to...
Kristen, Yes, you can center a grid at an object through serial sections. First, create your pattern of grid traces, such as by specifying a rectangular grid...
Thanks John -- Jeremy and Bob -- here's how to make the grid could you try it and give us feedback. Also - everyone, please go to synapses.bu.edu and join the...
Dear John, I am very excited about the impending release of RECONSTRUCT. It also seems that you plan to maintain the RECONSTRUCT users site, which is great....
Nicolas, It sounds like you have a problem with your video driver's OpenGL support. I ran into a similar problem when I tried to run Reconstruct on a Fujitsu...
Sharron, As you found, the range of sections used for object reconstruction is set in the 3D tab of the Series Options. This section range is only used for 3D...
Dear John, In trace it was possible to make two cuts in an object, e.g. a spine so as to remove it from another object. As I understand the current cut tool,...
Dear John, While tracing if one wants to check something, like a group of ribosomes, it would be nice if the point tool could draw a box around the items one...
Hi John, I'm trying to reconstruct some synapses with mixed results. It looks like I can only get 3D objects from closed traces- so if I trace a PSD with the...
Dr. Fiala, In Dr. Harris's lab, Bob and I have tried different image formats to decrease section load time in Reconstruct. We made a grayscale jpeg that does...
Dr. Fiala, Is it possible to specify hotkeys to select the tools in Reconstruct? Also, would it be possible to create a tool that combined the properties of...
Dear linnaea, The way I make these PSD traces is to do the following: 1) Cross-sectioned PSDs -- trace as a closed contour -- engulfing the thickness of the...
Richard, Your Boissonant surface has irregularities that look like some traces might not have the proper orientation or closure. You can verify the orientation...
John, ... The problem turned out to be that some of the traces were designated to be of the inner surface. Reverse from the Trace menu fixed the offending ...
Kristen, An image of a cracked section can be "fixed" by drawing domains for each piece and shifting the two pieces back together. Import the section image and...
Dear John, Most of the trace palette keys hold their assigned names until I manually change them. This does not appear to be true for the stamp 3 key (default...
John, I am unable to create a 3D object of an en-face synapse that occupies only 1 section -- unless I create a "dummy" second section for the same object. Is...
I found a numerical error in the Distances calculation that sometimes reported an intersection between two traces when there was not one. As a consequence the...
Dr. Fiala, Is it possible to merge series (.ser) or image reference files, so that traces, etc done by multiple users could be collated? Thanks, Jeremy...
Reconstruct Users, I've created a new version of Reconstruct. This new "build" contains accumulated undocumented features that I realize might be confusing to...
Hi John, I've noticed that the bmp images from scanned negatives load significantly faster than either bmp or jpg images from the digital camera. The image...
Is it possible to get a free program to convert VRML files to .mov or .ave files? I'd like to insert a video into a Powerpoint presentation. Thanks, Jeremy...
Is there a way to list lengths of traces in the object table, or to get all traces across the series in a single table? I'm measuring mitochondria and...
Linnaea, One way would be to treat them as Z-lengths on a single section. Then the z-lengths table will give you the correct values all in one table -- like...
A new version is available at: http://synapses.bu.edu/tools/download.htm The users manual has been updated to reflect the new functionality. What's new? ...
John, I had a quick question. If I want to measure the amount of surface area (or contact area) between two objects that come into contact, do I simple draw...
Reconstruct users, Having trouble with z-trace notes or palette comments? A new build (v1.0.2.1) available from the File section of the Reconstruct users group...
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