NAMIC Wiki - User contributions [en]

2011 Summer Project Week Segementation Reconstruction Pericardial Sac

2011-06-24T15:17:55Z

Mahvash:

__NOTOC__
<gallery>
Image:Snake-cmu.png|Snake Robot from CMU
Image:pericardium3.png|CT of Pericardium
Image:Snake.png|New Snake Robot for Epicardial AF
Image:peri.png|Segmented Pericardium and blood flow for two slices of CT scans
Image:segment.png|automatic segmentation of the blood flow
</gallery>

'''Segmentation and 3d reconstruction of pericardial sac'''

==Key Investigators==
* Harvard Medical School: Mohsen Mahvash

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

#:Segmentaion and 3d
#:reconstruction of pericardial sac
#: (a thin tissue layer that covers the heart)
#: for image guided surgery and surgical training simulators
</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
#:Trying 3dslicer modules
#:for segmentation
#:and 3d reconstruction
#: to allow image guided surgery and surgical simulation
</div>

<div style="width: 40%; float: left;">
#:1- I used several modules including editor that includes functions for automatic and manual segmentaion
#:2- For pericardium segmentation it seems the only option is manual segmentation
#:3- I learned that for huge number of slices we need more memory more than 8GB
#:4- WE can connect slicer and either a robot or haptic device using OpenIGTLink and we tested for a program that simulate a robot tip position
#:- Thanks to Ron and Noby's Group and others for their help

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

2011 Summer Project Week Segementation Reconstruction Pericardial Sac

2011-06-24T15:16:48Z

Mahvash:

__NOTOC__
<gallery>
Image:Snake-cmu.png|Snake Robot from cmu
Image:pericardium3.png|CT of Pericardium
Image:Snake.png|New Snake Robot for AF
Image:peri.png|Segmented Pericardium and blood flow dor two slices
Image:segment.png|automatic segmentation of the blood flow
</gallery>

'''Segmentation and 3d reconstruction of pericardial sac'''

==Key Investigators==
* Harvard Medical School: Mohsen Mahvash

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

#:Segmentaion and 3d
#:reconstruction of pericardial sac
#: (a thin tissue layer that covers the heart)
#: for image guided surgery and surgical training simulators
</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
#:Trying 3dslicer modules
#:for segmentation
#:and 3d reconstruction
#: to allow image guided surgery and surgical simulation
</div>

<div style="width: 40%; float: left;">
#:1- I used several modules including editor that includes functions for automatic and manual segmentaion
#:2- For pericardium segmentation it seems the only option is manual segmentation
#:3- I learned that for huge number of slices we need more memory more than 8GB
#:4- WE can connect slicer and either a robot or haptic device using OpenIGTLink and we tested for a program that simulate a robot tip position
#:- Thanks to Ron and Noby's Group and others for their help

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

File:Peri.png

2011-06-24T15:12:51Z

Mahvash:

File:Segment.png

2011-06-24T15:12:05Z

Mahvash:

2011 Summer Project Week Segementation Reconstruction Pericardial Sac

2011-06-24T14:47:02Z

Mahvash: /* Key Investigators */

__NOTOC__
<gallery>
Image:Snake-cmu.png|Snake Robot from cmu
Image:pericardium3.png|CT of Pericardium
Image:Snake.png|New Snake Robot for AF
</gallery>

'''Segmentation and 3d reconstruction of pericardial sac'''

==Key Investigators==
* Harvard Medical School: Mohsen Mahvash

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

#:Segmentaion and 3d
#:reconstruction of pericardial sac
#: (a thin tissue layer that covers the heart)
#: for image guided surgery and surgical training simulators
</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
#:Trying 3dslicer modules
#:for segmentation
#:and 3d reconstruction
#: to allow image guided surgery and surgical simulation
</div>

<div style="width: 40%; float: left;">
#:1- I used several modules including editor that includes functions for automatic and manual segmentaion
#:2- For pericardium segmentation it seems the only option is manual segmentation
#:3- I learned that for huge number of slices we need more memory more than 8GB
#:4- WE can connect slicer and either a robot or haptic device using OpenIGTLink and we tested for a program that simulate a robot tip position
#:- Thanks to Ron and Noby's Group and others for their help

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

2011 Summer Project Week Segementation Reconstruction Pericardial Sac

2011-06-24T14:42:29Z

Mahvash: /* Key Investigators */

__NOTOC__
<gallery>
Image:Snake-cmu.png|Snake Robot from cmu
Image:pericardium3.png|CT of Pericardium
Image:Snake.png|New Snake Robot for AF
</gallery>

'''Segmentation and 3d reconstruction of pericardial sac'''

==Key Investigators==
* Harvard Medical School: Mohsen Mahvash

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

#:Segmentaion and 3d
#:reconstruction of pericardial sac
#: (a thin tissue layer that covers the heart)
#: for image guided surgery and surgical training simulators
</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
#:Trying 3dslicer modules
#:for segmentation
#:and 3d reconstruction
#: to allow image guided surgery and surgical simulation
</div>

<div style="width: 40%; float: left;">
#:1- I used several modules including editor that includes functions for automatic and manual segmentaion
#:2- For pericardium segmentation it seems the only option is manual segmentation
#:I learned that for huge number of slices we need more memory more than 8GB
#:3- It is easy to connect slicer and either a robot or haptic device using openglt and we tested for a program that simulate the robot
#:3- Thanks to Ron and Nobi Group and other for their help

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

2011 Summer Project Week Segementation Reconstruction Pericardial Sac

2011-06-24T14:40:25Z

Mahvash: /* Key Investigators */

__NOTOC__
<gallery>
Image:Snake-cmu.png|Snake Robot from cmu
Image:pericardium3.png|CT of Pericardium
Image:Snake.png|New Snake Robot for AF
</gallery>

'''Segmentation and 3d reconstruction of pericardial sac'''

==Key Investigators==
* Harvard Medical School: Mohsen Mahvash

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

#:Segmentaion and 3d
#:reconstruction of pericardial sac
#: (a thin tissue layer that covers the heart)
#: for image guided surgery and surgical training simulators
</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
#:Trying 3dslicer modules
#:for segmentation
#:and 3d reconstruction
#: to allow image guided surgery and surgical simulation
</div>

<div style="width: 40%; float: left;">
#:1- I used several modules including editor that includes functions for automatic and manual segmentaion
#:2- For pericardium segmentation it seems the only option is manual segmentation
#:I learned that for huge number of slices we need more memory more than 8GB
#: It is easy to connect slicer and either a robot or haptic device using opengl

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

2011 Summer Project Week Segementation Reconstruction Pericardial Sac

2011-06-20T16:36:53Z

Mahvash:

File:Snake-cmu.png

2011-06-20T16:29:58Z

Mahvash:

File:Pericardium3.png

2011-06-20T16:16:41Z

Mahvash:

2011 Summer Project Week Segementation Reconstruction Pericardial Sac

2011-06-20T16:08:04Z

Mahvash:

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:Snake.png|Snake Robot for AF
</gallery>

'''Segmentation and 3d reconstruction of pericardial sac'''

==Key Investigators==
* Harvard Medical School: Mohsen Mahvash

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

#:Segmentaion and 3d
#:reconstruction of pericardial sac
#: (a thin tissue layer that covers the heart)
#: for image guided surgery and surgical training simulators
</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
#:Trying 3dslicer modules
#:for segmentation
#:and 3d reconstruction
#: to allow image guided surgery and surgical simulation
</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

File:Snake.png

2011-06-20T16:04:22Z

Mahvash:

File:Pericardium.png

2011-06-20T15:58:11Z

Mahvash:

2011 Summer Project Week Segementation Reconstruction Pericardial Sac

2011-06-20T14:06:30Z

Mahvash: /* Key Investigators */

'''Full title of project'''
Segmentation and 3d reconstruction of pericardial sac

==Key Investigators==
* Harvard Medical School: Mohsen Mahvash

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

#:Segmentaion and 3d
#:reconstruction of pericardial sac
#: (a thin tissue layer that covers the heart)
#: for image guided surgery and surgical training simulators
</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
#:Trying 3dslicer modules
#:for segmentation
#:and 3d reconstruction
#: to allow image guided surgery and surgical simulation
</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

User:Mahvash

2011-06-16T18:54:46Z

Mahvash: Created page with ''''Full title of project''' Segmentation and 3d reconstruction of pericardial sac ==Key Investigators== * Harvard Medical School: Mohsen Mahvash <div style="margin: 20px;"> <…'

'''Full title of project'''
Segmentation and 3d reconstruction of pericardial sac

==Key Investigators==
* Harvard Medical School: Mohsen Mahvash

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

#: Accurate Segmentaion and 3d
#:reconstruction of pericardial sac
#: (a thin tissue layer that covers the heart)
#: for image guided surgery and surgical training simulators
</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
#:Trying 3dslicer modules
#:for segmentation
#:and 3d reconstruction
#: and possible add new modules that allow image guided surgery and surgical simulation
</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

2011 Summer Project Week Template

2011-06-09T20:59:38Z

Mahvash: /* References */

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:notfound.png|Interesting picture to be added...
</gallery>

'''Full Title of Project'''

==Key Investigators==
* Harvard Medical School: Mohsen Mahvash

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

#:Segmentaion and 3d
#:reconstruction of pericardial sac
#: (a thin tissue layer that covers the heart)

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
#:Trying 3dslicer modules
#:for segmentation
#:and 3d reconstruction

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

==References==
D’Avila A, Scanavacca M, Sosa E, Riskin JN, Reddy VY. Pericardial anatomy for the Interventional Electrophysiologist. J Cardiovasc Electrophysiol 2003;14:422-430

==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#NITRIC distribution
#Slicer Module
##Built-in:
##Extension -- commandline:
##Extension -- loadable:

2011 Summer Project Week Template

2011-06-09T20:54:47Z

Mahvash: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:notfound.png|Interesting picture to be added...
</gallery>

'''Full Title of Project'''

==Key Investigators==
* Harvard Medical School: Mohsen Mahvash

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

#:Segmentaion and 3d
#:reconstruction of pericardial sac
#: (a thin tissue layer that covers the heart)

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
#:Trying 3dslicer modules
#:for segmentation
#:and 3d reconstruction

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

==References==



==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#NITRIC distribution
#Slicer Module
##Built-in:
##Extension -- commandline:
##Extension -- loadable:

2011 Summer Project Week Template

2011-06-09T20:36:59Z

Mahvash: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:notfound.png|Interesting picture to be added...
</gallery>

'''Full Title of Project'''

==Key Investigators==
* Harvard Medical School: Mohsen Mahvash

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

Segmentaion and 3d reconstruction\
of pericardial
sac

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
trying code on specific datasets? talking with other attendees

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

==References==



==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#NITRIC distribution
#Slicer Module
##Built-in:
##Extension -- commandline:
##Extension -- loadable:

2011 Summer Project Week Template

2011-06-03T14:24:16Z

Mahvash: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:notfound.png|Interesting picture to be added...
</gallery>

'''Full Title of Project'''

==Key Investigators==
* Harvard Medical School and VA Boston: Mohsen Mahvash, ?

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>



</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3> The process can be performed by thresholding the pixel values, by using the marching cubes algorithm , by manually segmenting portions of the images, or by implementing any combination of the three aforementioned methods</h3>



</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

==References==



==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#NITRIC distribution
#Slicer Module
##Built-in:
##Extension -- commandline:
##Extension -- loadable: