----- Forwarded message from
morphmet_modera...@morphometrics.org -----
Date: Mon, 11 Feb 2013
19:52:09 -0800
From: morphmet_modera...@morphometrics.org
Reply-To: morphmet_modera...@morphometrics.org
Subject: Re: ?
Programs
To: morphmet@morphometrics.org
----- Forwarded message from
morphmet_modera...@morphometrics.org
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Date: Sun, 10 Feb 2013 15:45:28 -0800
From:
morphmet_modera...@morphometrics.org
Reply-To:
morphmet_modera...@morphometrics.org
Subject: Re: ? Programs
To: morphmet@morphometrics.org
----- Forwarded message from
morphmet_modera...@morphometrics.org
-----
Date: Wed, 06 Feb 2013 19:29:05 -0800
From:
morphmet_modera...@morphometrics.org
Reply-To:
morphmet_modera...@morphometrics.org
Subject: Re: ? Programs
To: morphmet@morphometrics.org
----- Forwarded message from Pierre Guyomarc'h
<pierreg...@gmail.com> -----
Date: Tue, 5 Feb 2013 13:31:57
-0500
From: Pierre Guyomarc'h <pierreg...@gmail.com>
Reply-To: Pierre Guyomarc'h <pierreg...@gmail.com>
Subject: Re: ?
Programs
To: morphmet@morphometrics.org
Date: Sun, 3 Feb 2013 03:04:27 -0500
Subject: Re: ? Programs
From: Alannah Pearson <alannahpear...@internode.on.net>
Reply-To: Alannah Pearson <alannahpear...@internode.on.net>
To: "morphmet@morphometrics.org" <morphmet@morphometrics.org>
Hi Terrie,I've got a license for TIVMI but I cannot work it out! It's seems complicated, but I haven't spent much time with it yet. I will endeavor to practice at it. It's seems not very user friendly and being so new to this process, I'm quite behind the ball. Have you used it much?I will take a look at Mimics too. Thank you so much,Alannah
----- Forwarded message from Terrie Simmons <terrielsimm...@gmail.com> -----
Date: Fri, 1 Feb 2013 07:51:36 -0500
From: Terrie Simmons <terrielsimm...@gmail.com>
Reply-To: Terrie Simmons <terrielsimm...@gmail.com>
Subject: RE: ? Programs
To: morphmet@morphometrics.orgI used Mimics for this purpose. It is expensive but they do have an academic discount. It is extremely user friendly and easy to use. It has measurement templates preloaded but you can also create your own with your own landmarks. Landmarks can be simultaneously placed and viewed in 3d and 2d. You can quickly export measurements as well as your landmark coordinates.
As for free programs, there's 3DSlicer, MeshLab, and TIVMI is new.
Terrie
On Jan 30, 2013 12:48 AM, <morphmet_modera...@morphometrics.org> wrote:
----- Forwarded message from Alannah Pearson <alannahpear...@internode.on.net> -----
Date: Mon, 28 Jan 2013 01:54:35 -0500
From: Alannah Pearson <alannahpear...@internode.on.net>
Reply-To: Alannah Pearson <alannahpear...@internode.on.net>
Subject: RE: ? Programs
To: morphmet@morphometrics.org
Hi Bill,
Thanks for the suggestions. I am using CT scans which I ultimately was wanting to use and gather landmarks from. I am very new to this whole thing (literally only a few months) and at this point I'm just checking out what my options are. I've just started my PhD program. Ultimately, I want to use the scans in place of the actual specimen, so I need it to be fairly good quality. I will try the few trial options you have listed. I have Meshlab installed but I need an intermediary program that will convert my image stack into a smooth mesh. I understand there are a lot of options out there, at this point I'm trying to get a "visual" idea of what I am planning on doing, so loosely going through a practice process at the moment.
It's nice to get a good idea of what I need and what the best options are.
Thank you again,
Alannah
-----Original Message-----
From: morphmet_modera...@morphometrics.org [mailto:morphmet_modera...@morphometrics.org]
Sent: Monday, 28 January 2013 5:26 PM
To: morphmet@morphometrics.org
Subject: Re: ? Programs
----- Forwarded message from William Sellers <w...@mac.com> -----
Date: Sun, 27 Jan 2013 06:22:47 -0500
From: William Sellers <w...@mac.com>
Reply-To: William Sellers <w...@mac.com>
Subject: Re: ? Programs
To: morphmet@morphometrics.org
There are lots of possibilities nowadays - some free, some paid. What you need depends a bit on where your image sequence comes from. If it's from CT then there is usually enough contrast for the automated systems to isosurface your mesh automatically. I use Osirix for this but there are plenty of others and they all work perfectly well. I used to think there wasn't much difference between them but I'm not so sure any more - mesh quality looks like it might be a little better in Avizo which surprises me a little since they all use the same algorithms under the hood (marching cubes is more or less ubiquitous). However it may incorporate some cleanup. If you need to clean up your images first then that's a whole different ballgame and you need to look at the various tools available. This is where the free versions do lose out to the paid for software although I do quite like Seg3D.
Once you've got your mesh, what are your plans? The meshes that come out of isosurfacing are often not very good. By that I mean that they either have an enormous number of tiny triangles, or if you apply smoothing and decimation within the isosurfacing software, they are often over smoothed and missing features. Meshlab does quite a good job of fixing them up but it describes what it does in rather technical language and it tends to crash with very big meshes (although it is getting better). If you want to lovingly fix up your meshes interactively then again the paid for tools do a much better job - Geomagic for example is excellent.
The paid for options are all *very* expensive - several thousand pounds upwards - and they can have expensive yearly costs too. So I'd invest some time in the free options if you can.
Cheers
Bill
--
Dr. Bill Sellers Email: william.sell...@manchester.ac.uk
Faculty of Life Sciences Tel. 0161 2751719
The University of Manchester Fax: 0161 2755082
D1239 Michael Smith Building Mob: 0785 7655786
Oxford Road, Manchester, M13 9PT, UK http://www.animalsimulation.org
On 27 Jan 2013, at 05:02, morphmet_modera...@morphometrics.org wrote:
>
> ----- Forwarded message from Alannah Pearson <alannahpear...@internode.on.net> -----
>
> Date: Fri, 25 Jan 2013 23:06:07 -0500
> From: Alannah Pearson <alannahpear...@internode.on.net>
> Reply-To: Alannah Pearson <alannahpear...@internode.on.net>
> Subject: ? Programs
> To: morphmet@morphometrics.org
>
> Hi, I was wondering what programs are available that can take an image sequence and convert into a mesh? Or will I require several programs? Does anyone know of particularly good ones? Any help is greatly appreciated.
>
>
>
>
>
> Thanks,
>
>
> Alannah
>
>
>
>
> ----- End forwarded message -----
>
>
>
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--
Pierre Guyomarc'h
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