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Bone Imaging Laboratory Wiki

Wiki Concept 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. 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.

Contents

Scanco User Instructions OpenVMS Basics Micro-CT Basics Scanning Evaluation Results Backup and Deletion Remote Access Project Management Scanco MicroCT Operation MicroCT Evaluation and Analysis Writing IPL Scripts Errors and Fixes Uploading MRI to Scanco Uploading Xradia *.bin to Scanco		Scanco Administration OpenVMS Scanning FAQ Calibration and Quality Control (QC) Reconstruction Process, Jobs and Printing Data Management Remote Access Dose Software FAQ Hardware FAQ 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. Computers This section covers generic computer-related topics not covered in other sections. Unix command line basics SSH tricks Lab Server Configuration		Developer Software Plugins and Codes ImageJ Plugin for AIM ISQ RSQ files Amira Script for AIM files 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. JAGS Statistics Analysis of Bayesian models using Markov Chain Monte Carlo ParaView Subversion (SVN) for accessing the source code of lab software. 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 Miscellaneous Wireless Network in Morphometrics Lab Archive Obsolete stuff here.

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A link back to: Steve Boyd's homepage

To return to the Lab home page: Biomedical Imaging Metrics Homepage