Re: [FRIAM] My charity is more effective than your charity!
On 07/07/2015 07:06 PM, Marcus Daniels wrote: OsiriX is good for MRIs (DICOM files). MIALite is a segmentation plugin for it that works. Some of the OsiriX plugins have bitrot and crash the browser. Give your GPU something [cough] useful to do other than [cough] gaming.Don't know about segment tracking over time. Might have to write that.. Very cool. $700 is pretty stiff. It's not clear whether the plugin will work with the osirix free version. I have been using ginkgo cad, the free version of which works pretty well. On 07/07/2015 07:43 PM, Steve Smith wrote: I think you should *build* a video game based on your thorax... or a projection of it's 4D-ness... and uses Dr. Seuss's Lorax as a theme for the narrative! I'm just starting to dip my toes into 3D modeling (for another project). I wonder how difficult it would be to create a 3D world modeled off the DICOM images? It'd be kinda cool running a little avatar around over the kidneys and through the ribs, to grandmother's goiter we go! -- glen e. p. ropella, 971-255-2847, http://tempusdictum.com FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com
Re: [FRIAM] My charity is more effective than your charity!
I use the OsiriX Lite version, which is free. The MIALite plugin was also free. This was on a Haswell MacBook Pro running Yosemite. I didn't have the presence of mind to get the full body scan of my dog when the opportunity arose. Maybe for that I would have needed the 64 bit version (and pay for it). But for 3 Tesla brain scans the 32 bit version is sufficient.Does volumetric rendering without any plugins.And sufficiently well I can recognize the face! The segmentation / region growing can identify different compartments (at least of the brain), so perhaps with some parameter sweeps on starting positions and thresholds, one could create rooms and passageways. I would think major organs would be easier to isolate, but I don't have that data. What could be more satisfying that shooting-up unwelcome cellular activity? -Original Message- From: Friam [mailto:friam-boun...@redfish.com] On Behalf Of glen ep ropella Sent: Wednesday, July 08, 2015 8:40 AM To: The Friday Morning Applied Complexity Coffee Group Subject: Re: [FRIAM] My charity is more effective than your charity! On 07/07/2015 07:06 PM, Marcus Daniels wrote: OsiriX is good for MRIs (DICOM files). MIALite is a segmentation plugin for it that works. Some of the OsiriX plugins have bitrot and crash the browser. Give your GPU something [cough] useful to do other than [cough] gaming.Don't know about segment tracking over time. Might have to write that.. Very cool. $700 is pretty stiff. It's not clear whether the plugin will work with the osirix free version. I have been using ginkgo cad, the free version of which works pretty well. On 07/07/2015 07:43 PM, Steve Smith wrote: I think you should *build* a video game based on your thorax... or a projection of it's 4D-ness... and uses Dr. Seuss's Lorax as a theme for the narrative! I'm just starting to dip my toes into 3D modeling (for another project). I wonder how difficult it would be to create a 3D world modeled off the DICOM images? It'd be kinda cool running a little avatar around over the kidneys and through the ribs, to grandmother's goiter we go! -- glen e. p. ropella, 971-255-2847, http://tempusdictum.com FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com
Re: [FRIAM] My charity is more effective than your charity!
To all Game-makers and visualizers on this list, I want to warn you all (speaking of 3d modeling) that I have been for years (as Steve G. will testify) trying to get somebody to do 3D visualizations of the interaction of air masses, particularly in the region around and just east of the Sangres, where cold dry Canadian air masses slosh down the front range to be overlapped by warm moist air masses from the Gulf and hot dry air masses from the desert SW. It is here that the atmospheric layers are often generated that are the conditions for severe weather further east. The need is great for this visualization because many people who ought to know better are confused about this layering. I think I might even know of some people at NOAA who would help. Unfortunately, I have nothing to offer in return but my love and the promise of the enduring gratitude of TV weather people all over the Midwest who don't seem to understand the concept of a conditionally unstable atmosphere. You have been warned. Nick Nicholas S. Thompson Emeritus Professor of Psychology and Biology Clark University http://home.earthlink.net/~nickthompson/naturaldesigns/ -Original Message- From: Friam [mailto:friam-boun...@redfish.com] On Behalf Of glen ep ropella Sent: Wednesday, July 08, 2015 10:40 AM To: The Friday Morning Applied Complexity Coffee Group Subject: Re: [FRIAM] My charity is more effective than your charity! On 07/07/2015 07:06 PM, Marcus Daniels wrote: OsiriX is good for MRIs (DICOM files). MIALite is a segmentation plugin for it that works. Some of the OsiriX plugins have bitrot and crash the browser. Give your GPU something [cough] useful to do other than [cough] gaming.Don't know about segment tracking over time. Might have to write that.. Very cool. $700 is pretty stiff. It's not clear whether the plugin will work with the osirix free version. I have been using ginkgo cad, the free version of which works pretty well. On 07/07/2015 07:43 PM, Steve Smith wrote: I think you should *build* a video game based on your thorax... or a projection of it's 4D-ness... and uses Dr. Seuss's Lorax as a theme for the narrative! I'm just starting to dip my toes into 3D modeling (for another project). I wonder how difficult it would be to create a 3D world modeled off the DICOM images? It'd be kinda cool running a little avatar around over the kidneys and through the ribs, to grandmother's goiter we go! -- glen e. p. ropella, 971-255-2847, http://tempusdictum.com FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com
Re: [FRIAM] My charity is more effective than your charity!
I want to warn you all (speaking of 3d modeling) that I have been for years (as Steve G. will testify) trying to get somebody to do 3D visualizations of the interaction of air masses, particularly in the region around and just east of the Sangres, where cold dry Canadian air masses slosh down the front range to be overlapped by warm moist air masses from the Gulf and hot dry air masses from the desert SW. It is here that the atmospheric layers are often generated that are the conditions for severe weather further east. The need is great for this visualization because many people who ought to know better are confused about this layering. I think I might even know of some people at NOAA who would help. Unfortunately, I have nothing to offer in return but my love and the promise of the enduring gratitude of TV weather people all over the Midwest who don't seem to understand the concept of a conditionally unstable atmosphere. NOAA folks might have access to supercomputers, and appropriate codes, but if not there's.. http://www.worldcommunitygrid.org/research/viewSubmitAProposal.do Special consideration will be given to proposals addressing climate change, such as: Climate and meteorology: climate modeling, severe weather warning Climate change adaptation: sea level modeling, improving crop or livestock yields and resilience, watershed modeling Climate change mitigation: renewable energy modeling, renewable energy materials research Also there are experts in the area.. http://climatemodeling.science.energy.gov/presentations FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com
Re: [FRIAM] My charity is more effective than your charity!
Wow! Thank you, Marcus. And here I thought this was a folie a un. I should have learned by now that there is no craziness so profound that somebody doesn't have a website on it. N Nicholas S. Thompson Emeritus Professor of Psychology and Biology Clark University http://home.earthlink.net/~nickthompson/naturaldesigns/ -Original Message- From: Friam [mailto:friam-boun...@redfish.com] On Behalf Of Marcus Daniels Sent: Wednesday, July 08, 2015 11:57 AM To: The Friday Morning Applied Complexity Coffee Group Subject: Re: [FRIAM] My charity is more effective than your charity! I want to warn you all (speaking of 3d modeling) that I have been for years (as Steve G. will testify) trying to get somebody to do 3D visualizations of the interaction of air masses, particularly in the region around and just east of the Sangres, where cold dry Canadian air masses slosh down the front range to be overlapped by warm moist air masses from the Gulf and hot dry air masses from the desert SW. It is here that the atmospheric layers are often generated that are the conditions for severe weather further east. The need is great for this visualization because many people who ought to know better are confused about this layering. I think I might even know of some people at NOAA who would help. Unfortunately, I have nothing to offer in return but my love and the promise of the enduring gratitude of TV weather people all over the Midwest who don't seem to understand the concept of a conditionally unstable atmosphere. NOAA folks might have access to supercomputers, and appropriate codes, but if not there's.. http://www.worldcommunitygrid.org/research/viewSubmitAProposal.do http://www.worldcommunitygrid.org/research/viewSubmitAProposal.do Special consideration will be given to proposals addressing climate change, such as: Climate and meteorology: climate modeling, severe weather warning Climate change adaptation: sea level modeling, improving crop or livestock yields and resilience, watershed modeling Climate change mitigation: renewable energy modeling, renewable energy materials research Also there are experts in the area.. http://climatemodeling.science.energy.gov/presentations http://climatemodeling.science.energy.gov/presentations FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com http://redfish.com/mailman/listinfo/friam_redfish.com FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com
Re: [FRIAM] My charity is more effective than your charity!
We went to dinner at a friend's place on the 4th. I explained how happy my oncologist and my research nurse were that a few of my periaortic lymph nodes had shrunk by a miniscule amount between the last scan (6 months ago) and this latest one. And I (again) floated my skepticism, which is based on the fact that they only measured in 2 dimensions ... yet my thorax is a 3D object. And, thank the gods, I've gained all the weight I lost during my chemo. So, it seems completely reasonable that a 2D projection of a 3D object may not take into account any rotation or compression due to, e.g. an increase in visceral fat. In observing a few neurologists, it doesn't seem common yet to do automated 3D reconstructions or isolate spatial anomalies with boundary inference techniques. They just step through the slices. Or in your case, one of them. I guess they get used to doing it one way, develop protocols around it, and they tend to stick around a long time. I think your thorax is at least a 4D object! (Enter a dozen e-mails on what an object really is or is not..) Marcus FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com
Re: [FRIAM] My charity is more effective than your charity!
On 07/07/2015 02:47 PM, Marcus Daniels wrote: I think your thorax is at least a 4D object! Since I get copies of all the images on CD, I've thought about doing a 3D animation. It might be a bit difficult to interpolate between scans. But surely there are established methods for doing it. I just need to quit playing video games long enough to do the work. -- ⇔ glen FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com
Re: [FRIAM] My charity is more effective than your charity!
OsiriX is good for MRIs (DICOM files). MIALite is a segmentation plugin for it that works. Some of the OsiriX plugins have bitrot and crash the browser. Give your GPU something [cough] useful to do other than [cough] gaming. Don't know about segment tracking over time. Might have to write that.. -Original Message- From: Friam [mailto:friam-boun...@redfish.com] On Behalf Of glen Sent: Tuesday, July 07, 2015 4:36 PM To: The Friday Morning Applied Complexity Coffee Group Subject: Re: [FRIAM] My charity is more effective than your charity! On 07/07/2015 02:47 PM, Marcus Daniels wrote: I think your thorax is at least a 4D object! Since I get copies of all the images on CD, I've thought about doing a 3D animation. It might be a bit difficult to interpolate between scans. But surely there are established methods for doing it. I just need to quit playing video games long enough to do the work. -- ⇔ glen FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com
Re: [FRIAM] My charity is more effective than your charity!
I think you should *build* a video game based on your thorax... or a projection of it's 4D-ness... and uses Dr. Seuss's Lorax as a theme for the narrative! OsiriX is good for MRIs (DICOM files). MIALite is a segmentation plugin for it that works. Some of the OsiriX plugins have bitrot and crash the browser. Give your GPU something [cough] useful to do other than [cough] gaming. Don't know about segment tracking over time. Might have to write that.. -Original Message- From: Friam [mailto:friam-boun...@redfish.com] On Behalf Of glen Sent: Tuesday, July 07, 2015 4:36 PM To: The Friday Morning Applied Complexity Coffee Group Subject: Re: [FRIAM] My charity is more effective than your charity! On 07/07/2015 02:47 PM, Marcus Daniels wrote: I think your thorax is at least a 4D object! Since I get copies of all the images on CD, I've thought about doing a 3D animation. It might be a bit difficult to interpolate between scans. But surely there are established methods for doing it. I just need to quit playing video games long enough to do the work. -- ⇔ glen FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com FRIAM Applied Complexity Group listserv Meets Fridays 9a-11:30 at cafe at St. John's College to unsubscribe http://redfish.com/mailman/listinfo/friam_redfish.com
