A general release of any new version of a synapses.bu.edu tool has been a long time coming... When will the first beta release of Reconstruct be available? -...
Nicolas, Regarding an "expand" capability, you're in luck. Reconstruct does have a Simplify command that incidentally expands the contour (now called a trace)...
Kristen, ... The most recent users manual is online at: http://synapses.bu.edu/tools/manual.htm Initially a chapter of the manual will be accessed through the...
Sharron, ... I'll get to work on the Distances table that would generate these distance measurements. The table will list distances between Objects, where an...
I have posted a new version (1.0.0.5) of Reconstruct at http://synapses.bu.edu/tools/download.htm This version includes a new item in the Object menu for...
Nicolas, A way to get text on sections is to create text traces and them paste them where desired. I've attached an arial font set of traces as a Reconstruct...
Reading an object list has been spotty. It rarely works in a timely mannor. I scanned my negs in at 600dpi - too big? Any other suggestions would be awesome! ...
Joel, When the object list is created, all the sections are scanned for traces. This will run reasonably fast when all the section files are on your local hard...
John, Thanks for the fast reply! The object list just says "reading" and never gets generated. My files are on a local drive. Any other ideas? Thanks Joel...
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...
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