Main Page

2017-06-14T14:36:56Z

Jennbhatla: /* Registration and Segmentation */

__NOTOC__

<center><b><font size="+3">Bone Imaging Laboratory Wiki</font></b>

<table width="97%" border="0">
<tr>
<td width="450" align="left" valign="middle" bgcolor="#ccff66">
<div align="center"><b><u> Wiki Concept</u></b></div>

<P>The idea of the 'Wiki' site is that any authorized user, in this case a member of the lab, can see and edit any of the pages on this site, as well as create new pages as required.
Also, there is a document section where useful documents can uploaded or downloaded by anyone in the group.</P>
<p>The purpose of this is to facilitate
information exchange within the lab and keep up-to-date How To and User Manuals for all lab procedures.</P>
</td>

<td bgcolor="#ccff05">[[Image:Smaller_bone_loss.jpg]]</td>
</tr>
</table>

</center>

== Contents ==
{| border="0" align="center" width="98%" valign="top" cellspacing="7" cellpadding="2"
|-
! width="33%"|
! |
! width="33%"|
! |
! width="33%"|
|-
|valign="top"|

===General Lab Topics===
----
*[[Research Group Contact Info]]
*[[Conferences]]
*[[Journal Club]]
*[[Subject Recruitment]]
*[[Publications]]
*[[Documents]]
*[[Current Problems]]
*[[Suggested Improvements to BME]]

===Lab Administration===
----
*[[Hardware Purchasing]]
*[[Laboratory Equipment List]]

===Scanco MicroCT and VMS Workstations===
----
* [http://www.ucalgary.ca/microct/documents/x-ray_how_to Detailed OpenVMS and Scanco MicroCT Instructions]
* [[Project Management]]
* [[OpenVMS]]
: Basic usage of OpenVMS systems.
* [[Scanco MicroCT Operation]]
* [[MicroCT Evaluation and Analysis]]
* [[Writing IPL Scripts]]
* [[Errors and Fixes]]
* [[Scanco Medical FAQ]]
* [[Uploading MRI to Scanco]]

===Dual-energy X-ray absorptiometry (DXA)===
----
* [[Scanning guidelines]]

===Network Access===
----
* [[VPN Setup]]

|bgcolor="#CCCCCC"|
|valign="top"|

===Registration and Segmentation===
----
*[[Scanco Image Registration]]
*[[SimilarityRegistration]]
*[[skiRegistration]]
*[[MRI to HR-pQCT Registration with Scanco]]

===Finite Element Modelling===
----
*[[FAIM Finite Element Solver]]
: This is the lab finite element software.
*[[Tutorial on Generating AIMs for FE Analysis]]
: First steps for processing microCT data for FE analysis.
*[[Scanco Finite Element Modelling]]
: We typically use our own FE solver, faim. This documentation may however be useful if you want for example to make comparisons with Scanco's FE solver.

===Visualization===
----
*[[Using ParaView]]

===Statistics===
----
*[[JAGS Usage]]
: Analysis of Bayesian models using Markov Chain Monte Carlo

===Computers===
----
This section covers generic computer-related topics not covered in other sections.
*[[Unix command line basics]]
*[[ssh|SSH tricks]]
*[[Lab Server Configuration]]
*[[Computer for STARS software]] STARS is CMG's fluid modelling software.

|bgcolor="#CCCCCC"|
|valign="top"|

===Developer===
----

====Lab Software Projects====
*[[Bone lab libraries]] A library of reusable bits for the kinds of things we do in the lab. Built on VTK and ITK and other toolkits.
*[[Bone lab applications]] provides a list of lab custom software.
*[[SAP development]]
: SAP is a tool for visualizing and manipulating AIMs.
*[[IGFA control]]
: Image guided failure assessment device (aka the cannon) can be controlled from PC via serial port.

====Platforms====
Obtaining, compiling and installing software development tools on various systems.
*[[Development on OS-X]]
*[[Development for Linux]]
*[[Development on Windows]]
*[[Development on OpenVMS]]

====Languages and Toolkits====
*[[C++ Development]]
*[[Creating VTK Classes]]
*[[ITK Development]]
*[[Matlab Development]]
*[[Writing plugins for ParaView]]

====Development Tools====
*[[Subversion (SVN)]] for accessing the source code of lab software.

===Miscellaneous===
----
*[[Wireless Network in Morphometrics Lab]]
*[[Archive]] Obsolete stuff here.

|}

----
<table align="left" width="85%">
<tr>
<td align="left" valign="middle" >
A link back to: [http://www.enme.ucalgary.ca/~skboyd/ Steve Boyd's homepage]
</td>
<td align="left" valign="middle"> To return to the Lab home page: [http://www.enme.ucalgary.ca/research/microct/ Biomedical Imaging Metrics Homepage]</td>
</tr></table>

Main Page

2017-06-14T03:06:42Z

Jennbhatla: /* Scanco MicroCT and VMS Workstations */

__NOTOC__

<center><b><font size="+3">Bone Imaging Laboratory Wiki</font></b>

<table width="97%" border="0">
<tr>
<td width="450" align="left" valign="middle" bgcolor="#ccff66">
<div align="center"><b><u> Wiki Concept</u></b></div>

<P>The idea of the 'Wiki' site is that any authorized user, in this case a member of the lab, can see and edit any of the pages on this site, as well as create new pages as required.
Also, there is a document section where useful documents can uploaded or downloaded by anyone in the group.</P>
<p>The purpose of this is to facilitate
information exchange within the lab and keep up-to-date How To and User Manuals for all lab procedures.</P>
</td>

<td bgcolor="#ccff05">[[Image:Smaller_bone_loss.jpg]]</td>
</tr>
</table>

</center>

== Contents ==
{| border="0" align="center" width="98%" valign="top" cellspacing="7" cellpadding="2"
|-
! width="33%"|
! |
! width="33%"|
! |
! width="33%"|
|-
|valign="top"|

===General Lab Topics===
----
*[[Research Group Contact Info]]
*[[Conferences]]
*[[Journal Club]]
*[[Subject Recruitment]]
*[[Publications]]
*[[Documents]]
*[[Current Problems]]
*[[Suggested Improvements to BME]]

===Lab Administration===
----
*[[Hardware Purchasing]]
*[[Laboratory Equipment List]]

===Scanco MicroCT and VMS Workstations===
----
* [http://www.ucalgary.ca/microct/documents/x-ray_how_to Detailed OpenVMS and Scanco MicroCT Instructions]
* [[Project Management]]
* [[OpenVMS]]
: Basic usage of OpenVMS systems.
* [[Scanco MicroCT Operation]]
* [[MicroCT Evaluation and Analysis]]
* [[Writing IPL Scripts]]
* [[Errors and Fixes]]
* [[Scanco Medical FAQ]]
* [[Uploading MRI to Scanco]]

===Dual-energy X-ray absorptiometry (DXA)===
----
* [[Scanning guidelines]]

===Network Access===
----
* [[VPN Setup]]

|bgcolor="#CCCCCC"|
|valign="top"|

===Registration and Segmentation===
----
*[[Scanco Image Registration]]
*[[SimilarityRegistration]]
*[[skiRegistration]]

===Finite Element Modelling===
----
*[[FAIM Finite Element Solver]]
: This is the lab finite element software.
*[[Tutorial on Generating AIMs for FE Analysis]]
: First steps for processing microCT data for FE analysis.
*[[Scanco Finite Element Modelling]]
: We typically use our own FE solver, faim. This documentation may however be useful if you want for example to make comparisons with Scanco's FE solver.

===Visualization===
----
*[[Using ParaView]]

===Statistics===
----
*[[JAGS Usage]]
: Analysis of Bayesian models using Markov Chain Monte Carlo

===Computers===
----
This section covers generic computer-related topics not covered in other sections.
*[[Unix command line basics]]
*[[ssh|SSH tricks]]
*[[Lab Server Configuration]]
*[[Computer for STARS software]] STARS is CMG's fluid modelling software.

|bgcolor="#CCCCCC"|
|valign="top"|

===Developer===
----

====Lab Software Projects====
*[[Bone lab libraries]] A library of reusable bits for the kinds of things we do in the lab. Built on VTK and ITK and other toolkits.
*[[Bone lab applications]] provides a list of lab custom software.
*[[SAP development]]
: SAP is a tool for visualizing and manipulating AIMs.
*[[IGFA control]]
: Image guided failure assessment device (aka the cannon) can be controlled from PC via serial port.

====Platforms====
Obtaining, compiling and installing software development tools on various systems.
*[[Development on OS-X]]
*[[Development for Linux]]
*[[Development on Windows]]
*[[Development on OpenVMS]]

====Languages and Toolkits====
*[[C++ Development]]
*[[Creating VTK Classes]]
*[[ITK Development]]
*[[Matlab Development]]
*[[Writing plugins for ParaView]]

====Development Tools====
*[[Subversion (SVN)]] for accessing the source code of lab software.

===Miscellaneous===
----
*[[Wireless Network in Morphometrics Lab]]
*[[Archive]] Obsolete stuff here.

|}

----
<table align="left" width="85%">
<tr>
<td align="left" valign="middle" >
A link back to: [http://www.enme.ucalgary.ca/~skboyd/ Steve Boyd's homepage]
</td>
<td align="left" valign="middle"> To return to the Lab home page: [http://www.enme.ucalgary.ca/research/microct/ Biomedical Imaging Metrics Homepage]</td>
</tr></table>

bone.wiki - User contributions [en]

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