Difference between revisions of "Main Page"
From Bone Imaging Laboratory
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<center><b><font size="+3">Bone Imaging Laboratory Wiki</font></b> | <center><b><font size="+3">Bone Imaging Laboratory Wiki</font></b> | ||
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<table width="97%" border="0"> | <table width="97%" border="0"> | ||
<tr> | <tr> | ||
− | <td width=" | + | <td width="200" align="center" valign="middle" bgcolor="#ccff66"> |
<div align="center"><b><u> Wiki Concept</u></b></div> | <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. | + | <P> <br>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> | Also, there is a document section where useful documents can uploaded or downloaded by anyone in the group.</P> | ||
− | <p> | + | |
− | information exchange within the lab and keep up-to-date How To and User Manuals for all lab procedures.</P> | + | </td> |
+ | |||
+ | <td bgcolor="#ccff66"> [[File:BonelabScanners.JPG|center|700px]]</td> | ||
+ | |||
+ | <td width="200" align="center" valign="middle" bgcolor="#ccff66"> | ||
+ | <div align="center"><b><u> The Purpose</u></b></div> | ||
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+ | <p><br>It's to facilitate information exchange within the lab and keep up-to-date How To and User Manuals for all lab procedures.</P> | ||
</td> | </td> | ||
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</tr> | </tr> | ||
</table> | </table> | ||
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</center> | </center> | ||
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{| border="0" align="center" width="98%" valign="top" cellspacing="7" cellpadding="2" | {| border="0" align="center" width="98%" valign="top" cellspacing="7" cellpadding="2" | ||
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− | + | ==[[Scanco User Instructions]]== | |
− | + | [[Scanco_User_Instructions#OpenVMS_Basics| '''OpenVMS Basics''']] | |
− | + | *[[Scanco_User_Instructions#OpenVMS_Beginner.27s_Reference| Beginner's Reference]] | |
− | + | *[[Scanco_User_Instructions#Session_Manager| Session Manager]] | |
− | + | *[[Scanco_User_Instructions#DEC_Terminal_and_Digital_Command_Language_.28DCL.29| DEC Terminal and DCL]] | |
− | + | *[[Scanco_User_Instructions#DCL_Programming_Guide| DCL Programming Guide]] | |
− | + | *[[Scanco_User_Instructions#List_of_basic_commands| List of basic commands]] | |
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− | + | [[Scanco_User_Instructions#Micro-Computed_Tomography_.28.C2.B5CT.29_Basics| '''Micro-CT Basics''']] | |
− | + | *[[Scanco_User_Instructions#User_Tutorials| User Tutorials]] | |
− | + | *[[Scanco_User_Instructions#Micro-CT_Image_Basics| µCT Image Basics]] | |
− | + | *[[Scanco_User_Instructions#Image_Data| Image Data]] | |
− | + | *[[Scanco_User_Instructions#Scanco_Medical_Micro-CT_Software| Scanco Medical µCT Software]] | |
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− | + | [[Scanco_User_Instructions#Scanning| '''Scanning''']] | |
− | **[[Scanco_User_Instructions# | + | *[[Scanco_User_Instructions#Sample_Name_Convention| Sample Name Convention]] |
− | **[[Scanco_User_Instructions# | + | *[[Scanco_User_Instructions#Register_Samples_for_Scanning| Register Samples for Scanning]] |
− | **[[Scanco_User_Instructions# | + | *[[Scanco_User_Instructions#Log_Sheets| Log Sheets]] |
− | + | *[[Scanco_User_Instructions#Patient_Casts_and_Sample_Holders| Patient Casts and Sample Holders]] | |
+ | *[[Scanco_User_Instructions#Scan_Parameters_.28Controlfiles.29| Scan Parameters (Controlfiles)]] | ||
+ | *[[Scanco_User_Instructions#Perform_a_Scan| Perform a Scan]] | ||
+ | *[[Scanco_User_Instructions#Action_on_Image_Artifacts| Action on Image Artifacts]] | ||
− | + | [[Scanco_User_Instructions#Evaluation| '''Evaluation''']] | |
− | + | *[[Scanco_User_Instructions#Evaluate_a_Scan| Evaluate a Scan]] | |
− | + | *[[Scanco_User_Instructions#Draw_Contours| Draw Contours]] | |
− | + | *[[Scanco_User_Instructions#Evaluation_Scripts| Evaluation Scripts]] | |
− | + | *[[Scanco_User_Instructions#Image_Processing_Language_.28IPL.29_Scripting| IPL Scripting]] | |
− | + | [[Scanco_User_Instructions#Results| '''Results''']] | |
− | **[[Scanco_User_Instructions# | + | *[[Scanco_User_Instructions#Images_and_Animations| Images and Animations]] |
+ | *[[Scanco_User_Instructions#Image_Tours| Image Tours]] | ||
+ | *[[Scanco_User_Instructions#Extract_Results| Extract Results]] | ||
+ | *[[Scanco_User_Instructions#Generate_Report| Generate Report]] | ||
− | + | [[Scanco_User_Instructions#Data_Management| '''Data Management''']] | |
− | + | *[[Scanco_User_Instructions#Trainee.E2.80.99s_Data_Responsibility| Trainee’s Data Responsibility]] | |
− | + | *[[Scanco_User_Instructions#Move_data_from_Data_Disk_to_Project_Disk| Move data from Data Disk to Project Disk]] | |
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− | + | [[Scanco_User_Instructions#Import_and_Export| '''Import and Export''']] | |
− | + | *[[Scanco_User_Instructions#Import_Foreign_Data_to_Scanco_System| Import Foreign Data]] | |
− | + | *[[Scanco_User_Instructions#Import_MRI_to_Scanco_System| Import MRI Images]] | |
− | + | *[[Scanco_User_Instructions#Import_Xradia_.2A.bin_to_Scanco_System|Import Xradia *.bin]] | |
− | + | *[[Scanco_User_Instructions#Get_Your_Files| Get Your Files]] | |
+ | [[Scanco_User_Instructions#Remote_Access| '''Remote Access''']] | ||
+ | *[[Scanco_User_Instructions#VPN_Setup| VPN Setup]] | ||
+ | *[[Scanco_User_Instructions#Setup_for_MAC.2FLinux| Setup for MAC/Linux]] | ||
+ | *[[Scanco_User_Instructions#Setup_for_Windows| Setup for Windows]] | ||
+ | *[[Scanco_User_Instructions#Remote_Access_FAQ| Remote Access FAQ]] | ||
|bgcolor="#CCCCCC"| | |bgcolor="#CCCCCC"| | ||
|valign="top"| | |valign="top"| | ||
− | + | ==[[Scanco Administration]]== | |
− | + | [[Scanco_Administration#OpenVMS| '''OpenVMS''']] | |
− | + | *[[Scanco_Administration#OpenVMS_References| OpenVMS References]] | |
− | + | *[[Scanco_Administration#Unix_related| Unix related]] | |
− | + | *[[Scanco_Administration#Graphical_Applications| Graphical Applications]] | |
− | + | *[[Scanco_Administration#File_Operations| File Operations]] | |
− | + | *[[Scanco_Administration#Administrative_Commands| Administrative Commands]] | |
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− | + | [[Scanco_Administration#Calibration_and_QC | '''Calibration and QC''']] | |
− | + | *[[Scanco_Administration#System_Updates| System Updates]] | |
− | + | *[[Scanco_Administration#Calibration_and_Conversion| Calibration and Conversion]] | |
− | + | *[[Scanco_Administration#Quality_Control_.28QC.29| Quality Control (QC)]] | |
− | + | [[Scanco_Administration#Scanning| '''Scanning''']] | |
− | + | *[[Scanco_Administration#Scanner_User_Manual| Scanner User Manual]] | |
− | + | *[[Scanco_Administration#Scanco.27s_FAQ| Scanco's FAQ]] | |
− | **[[Scanco_Administration#Reconstruction| Reconstruction]] | + | *[[Scanco_Administration#Scan| Scan]] |
+ | *[[Scanco_Administration#Reconstruction| Reconstruction]] | ||
+ | *[[Scanco_Administration#Manipulate_RSQ| Manipulate RSQ]] | ||
+ | *[[Scanco_Administration#Manipulate_ISQ| Manipulate ISQ]] | ||
+ | *[[Scanco_Administration#Image_Artifacts| Image Artifacts]] | ||
− | + | [[Scanco_Administration#Evaluation| '''Evaluation''']] | |
− | + | *[[Scanco_Administration#Analysis_Topics| Analysis Topics]] | |
− | + | *[[Scanco_Administration#UCT_EVALUATION| UCT_EVALUATION]] | |
− | + | *[[Scanco_Administration#Evaluation_FAQ| Evaluation FAQ]] | |
− | + | *[[Scanco_Administration#IPL_FAQ| IPL FAQ]] | |
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− | + | [[Scanco_Administration#Results| '''Results''']] | |
− | + | *[[Scanco_Administration#Extract_Results| Extract Results]] | |
− | + | *[[Scanco_Administration#Database| Database]] | |
− | + | *[[Scanco_Administration#Other_FAQ| Other FAQ]] | |
− | + | [[Scanco_Administration#Data_Management | '''Data Management''']] | |
+ | *[[Scanco_Administration#Lab.E2.80.99s_Data_Responsibility| Lab’s Data Responsibility]] | ||
+ | *[[Scanco_Administration#HP_Server_and_Disk_Array| HP Server and Disk Array]] | ||
+ | *[[Scanco_Administration#Tape| Tape]] | ||
+ | *[[Scanco_Administration#USB_Drive| USB_Drive]] | ||
+ | *[[Scanco_Administration#CDROM| CDROM]] | ||
+ | *[[Scanco_Administration#Saveset_and_Zip_files| Saveset and Zip files]] | ||
+ | *[[Scanco_Administration#Backup_and_Archive| Backup and Archive]] | ||
− | + | [[Scanco_Administration#Process.2C_Printer_and_System| '''Process, Printer and System''']] | |
+ | *[[Scanco_Administration#Processes_and_Jobs| Processes and Jobs]] | ||
+ | *[[Scanco_Administration#Printer| Printer]] | ||
+ | *[[Scanco_Administration#System| System]] | ||
− | + | [[Scanco_Administration#Remote_Access|'''Remote Access''']] | |
− | + | *[[Scanco_Administration#For_Scanco_support| For Scanco support]] | |
− | *[[Scanco | + | *[[Scanco_Administration#Access_VMS_filesystem| Access VMS filesystem]] |
− | *[[ | + | *[[Scanco_Administration#Setup_remote_access_FAQ| Setup remote access FAQ]] |
− | *[[ | + | *[[Scanco_Administration#Physical_connections| Physical connections]] |
− | *[[ | ||
− | + | [[Scanco_Administration#Dose| '''Dose''']] | |
− | + | *[[Scanco_Administration#Dose_Calculations| Dose Calculations]] | |
− | + | *[[Scanco_Administration#Optimize_Scan_for_Low_Dose| Optimize Scan for Low Dose]] | |
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− | *[[ | ||
− | *[[ | ||
|bgcolor="#CCCCCC"| | |bgcolor="#CCCCCC"| | ||
|valign="top"| | |valign="top"| | ||
− | === | + | ==[[Xradia Instructions]]== |
− | ---- | + | *[[Xradia_Instructions#User_Tutorials| User Tutorials]] |
+ | *[[Xradia_Instructions#Scanning| Scanning]] | ||
+ | *[[Xradia_Instructions#Reconstruction| Reconstruction]] | ||
+ | *[[Xradia_Instructions#Special_Topics| Special Topics]] | ||
+ | *[[Xradia_Instructions#Image_Tours| Image Tours]] | ||
+ | |||
+ | ==[[Books and References]]== | ||
+ | [[Books_and_References#Imaging|'''Imaging''']] | ||
+ | *[[Books_and_References#Essential_Physics_of_Medical_Imaging| Essential Physics of Medical Imaging]] | ||
+ | |||
+ | [[Books_and_References#Bone|'''Bone''']] | ||
+ | *[[Books_and_References#Books_on_Bone| Books on Bone]] | ||
+ | *[[Books_and_References#Bone_Morphometry_and_Densitometry| Bone Morphometry and Densitometry]] | ||
+ | |||
+ | [[Books_and_References#Student_Reports|'''Student Reports''']] | ||
+ | |||
+ | ==[[Image Registration]]== | ||
+ | [[Image_Registration#Scanco_Image_Registration|'''Scanco Image Registration''']] | ||
+ | *[[Image_Registration#Image_Transformation|Image Transformation]] | ||
+ | *[[Image_Registration#Image_Registration|Image Registration]] | ||
+ | *[[Image_Registration#Register_MRI_to_HR-pQCT|Register MRI to HR-pQCT]] | ||
+ | |||
+ | [[Image_Registration#Similarity_Registration|'''SimilarityRegistration''']] | ||
+ | *[[Image_Registration#Understand_rotation_parameters| Understand rotation parameters]] | ||
+ | *[[Image_Registration#Set_optimizer_scales| Set optimizer scales]] | ||
+ | |||
+ | [[Image_Registration#SkiRegistration|'''skiRegistration''']] | ||
+ | *[[Image_Registration#ITK_Rigid_registration_for_HR-pQCT| ITK Rigid registration for HR-pQCT]] | ||
+ | |||
+ | ==[[Finite Element Modelling]]== | ||
+ | *[[Finite_Element_Modelling#Scanco_Finite_Element_Modelling| Scanco Finite Element Modelling]] | ||
+ | *[[Finite_Element_Modelling#FAIM_Finite_Element_Solver| FAIM Finite Element Solver]] | ||
+ | *[[Finite_Element_Modelling#FE_Tutorial| FE Tutorial]] | ||
+ | *[[Finite_Element_Modelling#Prepare_AIMs_for_FE_Analysis| Prepare AIMs for FE Analysis]] | ||
− | + | ==[[Software Plugins and Codes]]== | |
---- | ---- | ||
− | * [[Software_Plugins_and_Codes# | + | *[[Software_Plugins_and_Codes#ImageJ| '''ImageJ''']] |
− | * [[Software_Plugins_and_Codes# | + | *[[Software_Plugins_and_Codes#Amira| '''Amira''']] |
− | *[[ | + | *[[Software_Plugins_and_Codes#R|'''R''']] |
− | + | *[[Software_Plugins_and_Codes#ParaView| '''ParaView''']] | |
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− | *[[ParaView]] | ||
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− | ==== | + | ==Languages and Toolkits== |
− | + | *[[C++|'''C++''']] | |
− | + | *[[VTK|'''VTK''']] | |
− | + | *[[ITK|'''ITK''']] | |
− | *[[ | ||
− | *[[ | ||
− | *[[ | ||
− | ==== | + | ==Miscellaneous== |
− | + | *[[Software_Development_Platforms| '''Software Development Platforms''']] | |
− | + | *[[Archive|'''Archive''']] | |
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− | *[[ | ||
− | *[[ | ||
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|} | |} | ||
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---- | ---- | ||
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<tr> | <tr> | ||
<td align="left" valign="middle" > | <td align="left" valign="middle" > | ||
− | + | To: [https://www.ucalgary.ca/labs/bonelab/team/steven-boyd '''Steve Boyd's homepage'''] | |
</td> | </td> | ||
− | <td align="left" valign="middle"> To | + | <td align="left" valign="middle"> To: [https://www.ucalgary.ca/labs/bonelab/home '''Bone Imaging Lab homepage''']</td> |
</tr></table> | </tr></table> |
Revision as of 16:02, 22 January 2021
Wiki Concept
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The Purpose
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To: Bone Imaging Lab homepage |