a tool to help create spectra for confocal databases

[daj1u06]

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If you can't find the actual data values for a new dye, just a curve, I've just
come across this very useful bit of freeware

http://sourceforge.net/projects/digitizer/files/Engauge%20Digitizer/digitizer-
4.1/

you import an image file of the curve, define the axes, click on points on the
curve and it'll spit out a .csv file of the data for you.

It is going to save me hours of manual work, aligning curves to a grid, reading
off data points writing them down and then entering into excel and I thought
that it might be useful to others as well as I don't recall seeing a post on this
before.

Note, the latest version seems to be missing some crucial libraries and won't
run on win7 64 bit, but version 4.1 (the link above) works fine.

No interest other than a very grateful user.

Regards,

Dave Johnston,
Bioimaging Unit, Southampton, UK

[jerie]

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Hi David,

certainly a very useful tool, thanks a lot. There are some risks with
aliasing and it may keep some from being critical with the data they base
their conclusions on ;)

Cheers, Jens


On Fri, May 2, 2014 at 5:59 PM, David Johnston <[hidden email]> wrote:

> *****
> To join, leave or search the confocal microscopy listserv, go to:
> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy
> Post images on http://www.imgur.com and include the link in your posting.
> *****
>
> If you can't find the actual data values for a new dye, just a curve, I've
> just
> come across this very useful bit of freeware
>
>
> http://sourceforge.net/projects/digitizer/files/Engauge%20Digitizer/digitizer-
> 4.1/
>
> you import an image file of the curve, define the axes, click on points on
> the
> curve and it'll spit out a .csv file of the data for you.
>
> It is going to save me hours of manual work, aligning curves to a grid,
> reading
> off data points writing them down and then entering into excel and I
> thought
> that it might be useful to others as well as I don't recall seeing a post
> on this
> before.
>
> Note, the latest version seems to be missing some crucial libraries and
> won't
> run on win7 64 bit, but version 4.1 (the link above) works fine.
>
> No interest other than a very grateful user.
>
> Regards,
>
> Dave Johnston,
> Bioimaging Unit, Southampton, UK
>

[George McNamara]

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Hi Dave,

I already did that for several hundred traces (through 2006), using
Un-Scan-Tt http://www.silkscientific.com/ (used it in part because
Engauge did not work at that time) and posted a 2000+ spectra xlsx file in
http://works.bepress.com/gmcnamara/9/

Carl Boswell - my coauthor in http://www.ncbi.nlm.nih.gov/pubmed/16969821
and now Urs Utzinger have Pubspectra data in a graphing site at

http://www.spectra.arizona.edu/

Urs has also added additional spectra, such as MP data from Watt Webb's lab.


Feel free to 'take over' the PubSpectra project - I would be happy to
post the graphs and raw data for you to organize! - and good luck
getting useful spectra data out of researchers.

George


On 5/2/2014 10:59 AM, David Johnston wrote:

> *****
> To join, leave or search the confocal microscopy listserv, go to:
> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy
> Post images on http://www.imgur.com and include the link in your posting.
> *****
>
> If you can't find the actual data values for a new dye, just a curve, I've just
> come across this very useful bit of freeware
>
> http://sourceforge.net/projects/digitizer/files/Engauge%20Digitizer/digitizer-
> 4.1/
>
> you import an image file of the curve, define the axes, click on points on the
> curve and it'll spit out a .csv file of the data for you.
>
> It is going to save me hours of manual work, aligning curves to a grid, reading
> off data points writing them down and then entering into excel and I thought
> that it might be useful to others as well as I don't recall seeing a post on this
> before.
>
> Note, the latest version seems to be missing some crucial libraries and won't
> run on win7 64 bit, but version 4.1 (the link above) works fine.
>
> No interest other than a very grateful user.
>
> Regards,
>
> Dave Johnston,
> Bioimaging Unit, Southampton, UK
>
>    

--



George McNamara, Ph.D.
Single Cells Analyst
L.J.N. Cooper Lab
University of Texas M.D. Anderson Cancer Center
Houston, TX 77054
Tattletales http://works.bepress.com/gmcnamara/26/

[Jeremy Lerner]

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To join, leave or search the confocal microscopy listserv, go to:
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Hi George,
I too thoroughly endorse Un-Scan It.  A very versatile and useful program.
I have had no problems in Win 7.

No commercial interest.
 
Jeremy 
LightForm, Inc.

>________________________________
> From: George McNamara <[hidden email]>
>To: [hidden email]
>Sent: Friday, May 2, 2014 9:15 PM
>Subject: Re: a tool to help create spectra for confocal databases
>
>
>*****
>To join, leave or search the confocal microscopy listserv, go to:
>http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy
>Post images on http://www.imgur.com and include the link in your posting.
>*****
>
>Hi Dave,
>
>I already did that for several hundred traces (through 2006), using
>Un-Scan-Tt http://www.silkscientific.com/ (used it in part because
>Engauge did not work at that time) and posted a 2000+ spectra xlsx file in
>http://works.bepress.com/gmcnamara/9/
>
>Carl Boswell - my coauthor in http://www.ncbi.nlm.nih.gov/pubmed/16969821
>and now Urs Utzinger have Pubspectra data in a graphing site at
>
>http://www.spectra.arizona.edu/
>
>Urs has also added additional spectra, such as MP data from Watt Webb's lab.
>
>
>Feel free to 'take over' the PubSpectra project - I would be happy to
>post the graphs and raw data for you to organize! - and good luck
>getting useful spectra data out of researchers.
>
>George
>
>
>
>On 5/2/2014 10:59 AM, David Johnston wrote:
>> *****
>> To join, leave or search the confocal microscopy listserv, go to:
>> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy
>> Post images on http://www.imgur.com and include the link in your posting.
>> *****
>>
>> If you can't find the actual data values for a new dye, just a curve, I've just
>> come across this very useful bit of freeware
>>
>> http://sourceforge.net/projects/digitizer/files/Engauge%20Digitizer/digitizer-
>> 4.1/
>>
>> you import an image file of the curve, define the axes, click on points on the
>> curve and it'll spit out a .csv file of the data for you.
>>
>> It is going to save me hours of manual work, aligning curves to a grid, reading
>> off data points writing them down and then entering into excel and I thought
>> that it might be useful to others as well as I don't recall seeing a post on this
>> before.
>>
>> Note, the latest version seems to be missing some crucial libraries and won't
>> run on win7 64 bit, but version 4.1 (the link above) works fine.
>>
>> No interest other than a very grateful user.
>>
>> Regards,
>>
>> Dave Johnston,
>> Bioimaging Unit, Southampton, UK
>>
>>   
>
>
>--
>
>
>
>George McNamara, Ph.D.
>Single Cells Analyst
>L.J.N. Cooper Lab
>University of Texas M.D. Anderson Cancer Center
>Houston, TX 77054
>Tattletales http://works.bepress.com/gmcnamara/26/
>
>
>
>