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It all depends on what kind of image analysis is prevalent in your facility, and what is the largest file (image data set) you are working with (deconvolution, 3D/4D image analysis).
Workstation is what you need. You can get the right one from Dell of HP outlet, the rest could be added (LSI RAID controller/HBA, RAM, graphics, etc). You may need dual processor if you use Parallel Computing TB.
If you need more specifics, please contact me offline.
Vitaly
240-342-6217
________________________________
From: Arvydas Matiukas <[log in to unmask]>
To: [log in to unmask]
Sent: Friday, March 8, 2013 12:24 PM
Subject: Computer for image analysis
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Dear listers/microscopists,
I assume there is good time to update new trends in
image analysis hardware. The last discussions on image
analysis computer were in 2006-8. Though the basic
principles of CPU, RAM, hard drive, video card, monitor
selection still hold some new types of hardware became
popular/available, e.g. SSD drives, APU, water cooling.
Now a decent gaming computer (~$1k) has the processing power
of a 2006 expensive workstation (~$20K). I was suprised that
I was able to completely overhaul my 8 year old ATX case
to a quad core 2GHz APU, 8GB 1600MHz RAM, 160GB SATA-2
SSD, water cooling, USB3 and SATA3 Gigabyte motherboard,
and 4 monitor 1GB video card.
for under $300 (online, after rebates).
Now I am wiling to upgrade/overhaul my work computer which
is used to run ImageJ, Fiji, Deconvolution (Autoquant, Huygens),
Matlab, PV-Vawe, Labview, Origin. Please advice/share you thoughts
what best configuration is possible to buy for $2-3k (monitor
excluded).
My first choice would be to go with a fast gaming computer, e.g.
Dell-Alienware Aurora
Windows* 7 Ultimate, 64Bit, English
2nd Generation Intel* Core* i7-3820 (10M Cache, Overclocked up to 4.1
GHz)
16GB (4 X 4GB) Quad Channel DDR3 at 1600MHz
NVIDIA* GeForce* GTX 660 1.5GB GDDR5
1TB RAID 0 (2x 500GB SATA 6Gb/s) Solid State Hybrid
19-in-1 Media Card Reader
No Monitor
Integrated 7.1 Channel Audio
The second choice would be to buy all components online and
build a computer myself (I have done this about 50 times over
25 years). This option typically saves money or buys better
components,
and provides you full specs of the hardware. The con of this
approach is that it wastes some of your time to debug/make all
the hardware work together and with your software. However,
as the computer is for me not just a box but a tool I am ready
to make this sacrifice.
BTW, is there any solid preference towards CPU Type (Intel ix/AMD/Intel
Xeon)
Thanks for your input/advice/thoughts,
Arvydas
--------------------
Arvydas Matiukas, Ph.D.
Director of Confocal&Two-Photon Core
Department of Neurosci& Physiology
SUNY Upstate Medical University
766 Irving Ave., WH 3167
Syracuse, NY 13210
tel.: 315-464-7997
fax: 315-464-8014
email: [log in to unmask]
>>> Tim Feinstein <[log in to unmask]> 3/7/2013 5:13 PM >>>
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Hi Chris,
Agreed about FRET with a dichroic-based beam splitter on the emission
side such as a DualView or QuadView. No commercial interest, but our
group uses a DV2 widefield/TIRF system for quantitative FRET just about
all day every day. As the executives say, drive for show and putt for
dough. In general I'd always go widefield if quantitative is more
important than spatial.
JP, unless I remember wrong the 510 has its detectors in a series with
switchable dichroic filters between each detector (for example, a
515-ish nm longpass dichroic between detectors 1 and 2 if you want to
see cerulean/venus/FRET). Thus it collects each emission channel
simultaneously and can go as fast as it can scan a line and alternate
lasers, which pass through a two-notch excitation filter.
Creulean-FRET bleed-through is still a bear of course, but it always is,
and there are long established ways to correct that.
cheers,
TF
Timothy Feinstein, PhD
Visiting Research Associate
Laboratory for GPCR Biology
Dept. of Pharmacology & Chemical Biology
University of Pittsburgh, School of Medicine
BST W1301, 200 Lothrop St.
Pittsburgh, PA 15261
On Mar 7, 2013, at 4:23 PM, Chris Tully wrote:
> *****
> To join, leave or search the confocal microscopy listserv, go to:
> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy
> *****
>
> If speed is the issue and you can illuminate with broad spectrum
light, you
> might want to consider the QV2 from Photometrics:
> http://www.photometrics.com/products/multichannel/
>
> It allows a single camera to simultaneously image up to 4 channels
by
> splitting the chip into quadrants and splitting the light into four
paths
> that each pass through a different emission filter before hitting the
CCD.
>
> Just clarify, I have never personally used one of these in a
research
> project, but I have worked with one in developing software support
for the
> resulting images. I do not work for Photometrics.
>
> Chris Tully
> Microscopy and Image Analysis Expert
> [log in to unmask]
> 240-475-9753 (c)
>
> [image: View my profile on
LinkedIn]<http://www.linkedin.com/in/christully/>
>
>
> On Tue, Mar 5, 2013 at 2:09 PM, Jean-Pierre CLAMME <
> [log in to unmask]> wrote:
>
>> *****
>> To join, leave or search the confocal microscopy listserv, go to:
>> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy
>> *****
>>
>> Hi Andreas,
>>
>> The issue is not grouping channels in the sequential box and
choosing line
>> and frame. The issue is changing filter sets quickly. To take the 3
images
>> DD, DA, AA the filter/light pathway has to be changed between
images. DD
>> and DA or DD and AA can be taken in the same configuration, but AA
and DA
>> can't. So the only way I can see is to use the Virtual channels and
that
>> is too slow line by Line.
>>
>> Best
>>
>> JP
>>
>>
>>
>>
>>
>> Confocal Microscopy List <[log in to unmask]> wrote
on
>> 03/05/2013 07:01:06 AM:
>>
>>> Andreas Bruckbauer <[log in to unmask]>
>>> Sent by: Confocal Microscopy List
<[log in to unmask]>
>>>
>>> 03/05/2013 07:05 AM
>>>
>>> Please respond to
>>> Confocal Microscopy List <[log in to unmask]>
>>>
>>> To
>>>
>>> [log in to unmask]
>>>
>>> cc
>>>
>>> Subject
>>>
>>> Re: Ratiometric FRET on Fluoview
>>>
>>> *****
>>> To join, leave or search the confocal microscopy listserv, go to:
>>> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy
>>> *****
>>
>>> I have not used it for FRET, but we have a sequential tick box at
>>> the bottom of the window with the channel parameters. When ticked
we
>>> can select "frame by frame" or "line by line" aquisition and how
the
>>> channels will be grouped together.
>>
>>> best wishes
>>
>>> Andreas
>>
>>>
>>> -----Original Message-----
>>> From: Jean-Pierre CLAMME <[log in to unmask]>
>>> To: CONFOCALMICROSCOPY <[log in to unmask]>
>>> Sent: Mon, 4 Mar 2013 22:44
>>> Subject: Ratiometric FRET on Fluoview
>>
>>>
>>> *****
>>> To join, leave or search the confocal microscopy listserv, go to:
>>> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy
>>> *****
>>
>>> Hello,
>>
>>> I saw a paper about Ratiometric FRET (Roszik, Cytometer 2009)
mentioning
>>> line by line acquisition of the 3 images (IDA, IDD, IAA). The
authors
>>> mentioned the use of a LSM 510.
>>
>>> I don't know the LSM510, but I have a fluoview 1000 and the only
way I
>> can
>>> see how to do that is using the "virual Channels" . However that
would
>> be
>>> image by image and not line by line.
>>
>>> Does anyone has done ratiometric FRET on the fluoview and what
method
>> did
>>> you use ?
>>
>>> Thank you and Best regards,
>>
>>> JP
>>
>>>
>>> - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
-
>>> Jean-Pierre CLAMME, PhD
>>> Chief Scientist
>>> Nitto Denko Technical
>>> 501 Via Del Monte
>>> Oceanside, CA 92058
>>> E-mail: [log in to unmask]
>>> Phone: 1-760-696-9428
>>
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