manual tagging, counting, and file saving

[Jeff Davis-11]

Hi,

I was resigned to spend thousands of dollars on Image-Pro software,  
just learned about ImageJ, and hope some experienced users can tell  
me if ImageJ will work for my needs.

I'm a member of a team that monitors seabird nesting colonies on  
islands off the California coast.  We have hundreds of digital aerial  
photographs that we need to "analyze."  Our needs are relatively  
simple.  We want to manually tag each photo using distinct  
characters, preferably letters, for each of five categories (well-
built nest, poorly-built nest, chicks, territorial bird, non-
territorial bird).  We would like the software to then count the  
number of each character to give us the total number of well-built  
nests, etc.  And last, we would like to save the marked image,  
preferably as a JPEG.

Simple, right?  Can ImageJ do all that?

Best regards,

Jeff Davis
UC Santa Cruz

[Christopher Coulon]

> I was resigned to spend thousands of dollars on Image-Pro software,
> just learned about ImageJ, and hope some experienced users can tell
> me if ImageJ will work for my needs.
>
> I'm a member of a team that monitors seabird nesting colonies on
> islands off the California coast.  We have hundreds of digital aerial
> photographs that we need to "analyze."  Our needs are relatively
> simple.  We want to manually tag each photo using distinct
> characters, preferably letters, for each of five categories (well-
> built nest, poorly-built nest, chicks, territorial bird, non-
> territorial bird).  We would like the software to then count the
> number of each character to give us the total number of well-built
> nests, etc.  And last, we would like to save the marked image,
> preferably as a JPEG.
>
> Simple, right?  Can ImageJ do all that?

Jeff,

It probably can, but you need to do a bit of programming.  Let me see a
typical image and perhaps I can help you further.

Chris Coulon
       

The GAIA Group
Global Automated Image Analysis
http://www.gaiag.net
[hidden email]


We welcome image analysis problems in all fields.

Christopher Coulon, Ph.D., Founder
415 515-3379

[xrayimage]

jeff

If you need a custom made program let me know I think I have the perfect
solution for your needs.

----- Original Message -----
From: "Jeff Davis" <[hidden email]>
To: <[hidden email]>
Sent: Saturday, December 03, 2005 6:29 PM
Subject: manual tagging, counting, and file saving

> Hi,
>
> I was resigned to spend thousands of dollars on Image-Pro software,  just
> learned about ImageJ, and hope some experienced users can tell  me if
> ImageJ will work for my needs.
>
> I'm a member of a team that monitors seabird nesting colonies on  islands
> off the California coast.  We have hundreds of digital aerial  photographs
> that we need to "analyze."  Our needs are relatively  simple.  We want to
> manually tag each photo using distinct  characters, preferably letters,
> for each of five categories (well- built nest, poorly-built nest, chicks,
> territorial bird, non- territorial bird).  We would like the software to
> then count the  number of each character to give us the total number of
> well-built  nests, etc.  And last, we would like to save the marked image,
> preferably as a JPEG.
>
> Simple, right?  Can ImageJ do all that?
>
> Best regards,
>
> Jeff Davis
> UC Santa Cruz

[W. Chan]

Hi Jeff

You might want to take a look at the cell counter plugin.  This plugin can
label and count at the same time and then you can just save the counter
window afterward, if desired.  It allows 4 types of features to be
counted.  It doesn't look like too difficult to add more types or change
the label.  Here is a link to the plugin and a page from the WCIF-ImageJ
manual.  Cheers.

http://rsb.info.nih.gov/ij/plugins/cell-counter.html
http://www.uhnresearch.ca/facilities/wcif/imagej/particle_analysis.htm#particle_manual

--
Pang (Wai Pang Chan, [hidden email], PAB A087, 206-685-1519)
The Biology Imaging Facility (http://staff.washington.edu/wpchan/if/)

On Sat, 3 Dec 2005, Jeff Davis wrote:

> I'm a member of a team that monitors seabird nesting colonies on islands off
> the California coast.  We have hundreds of digital aerial photographs that we
> need to "analyze."  Our needs are relatively simple.  We want to manually tag
> each photo using distinct characters, preferably letters, for each of five
> categories (well-built nest, poorly-built nest, chicks, territorial bird,
> non-territorial bird).  We would like the software to then count the number
> of each character to give us the total number of well-built nests, etc.  And
> last, we would like to save the marked image, preferably as a JPEG.
>
> Simple, right?  Can ImageJ do all that?

[Kurt De Vos]

I am working on a new version of the cell counter plugin that will  
allow the user to add and remove types of features dynamically. I  
expect it to be finished February next year or so.
kurt

On 4 Dec 2005, at 05:08, W. Chan wrote:

> Hi Jeff
>
> You might want to take a look at the cell counter plugin.  This  
> plugin can label and count at the same time and then you can just  
> save the counter window afterward, if desired.  It allows 4 types  
> of features to be counted.  It doesn't look like too difficult to  
> add more types or change the label.  Here is a link to the plugin  
> and a page from the WCIF-ImageJ manual.  Cheers.
>
> http://rsb.info.nih.gov/ij/plugins/cell-counter.html
> http://www.uhnresearch.ca/facilities/wcif/imagej/ 
> particle_analysis.htm#particle_manual
>
> --
> Pang (Wai Pang Chan, [hidden email], PAB A087, 206-685-1519)
> The Biology Imaging Facility (http://staff.washington.edu/wpchan/if/)
>
> On Sat, 3 Dec 2005, Jeff Davis wrote:
>
>> I'm a member of a team that monitors seabird nesting colonies on  
>> islands off the California coast.  We have hundreds of digital  
>> aerial photographs that we need to "analyze."  Our needs are  
>> relatively simple.  We want to manually tag each photo using  
>> distinct characters, preferably letters, for each of five  
>> categories (well-built nest, poorly-built nest, chicks,  
>> territorial bird, non-territorial bird).  We would like the  
>> software to then count the number of each character to give us the  
>> total number of well-built nests, etc.  And last, we would like to  
>> save the marked image, preferably as a JPEG.
>>
>> Simple, right?  Can ImageJ do all that?

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