interactive histogram

[Agustin Lobo]

As my images have outliers, the current Analyze/Histogram is pretty useless.
Is there a plugin for a histogram in which you can set the min and max
values for the plot?

Thanks

Agus

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[Unruh, Jay-2]

Hi Agus,

My histograming tools allow for min/max adjustment and logarithmic display and binning.  You can get them at http://research.stowers.org/imagejplugins.

Jay

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Agustin Lobo
Sent: Friday, April 12, 2013 6:00 AM
To: [hidden email]
Subject: interactive histogram

As my images have outliers, the current Analyze/Histogram is pretty useless.
Is there a plugin for a histogram in which you can set the min and max values for the plot?

Thanks

Agus

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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[Unruh, Jay-2]

I should mention that the plugin of interest is actually the Plugins>Image Tools>mask hist jru v1.  Just set the mask to null.

Jay

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Unruh, Jay
Sent: Friday, April 12, 2013 8:54 AM
To: [hidden email]
Subject: Re: interactive histogram

Hi Agus,

My histograming tools allow for min/max adjustment and logarithmic display and binning.  You can get them at http://research.stowers.org/imagejplugins.

Jay

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Agustin Lobo
Sent: Friday, April 12, 2013 6:00 AM
To: [hidden email]
Subject: interactive histogram

As my images have outliers, the current Analyze/Histogram is pretty useless.
Is there a plugin for a histogram in which you can set the min and max values for the plot?

Thanks

Agus

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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[Tiago Ferreira-2]

Hi Agustin,

> As my images have outliers, the current Analyze/Histogram is pretty useless.
> Is there a plugin for a histogram in which you can set the min and max
> values for the plot?

When you call the command holding "Alt" ("Alt"+"H") you can specify the range of
the histogram. You can also set the limits using a simple macro, e.g.:

getStatistics(area, mean, min, max, std);
run("Histogram", "bins=256 x_min="+ mean-std +" x_max="+ mean+std +" y_max=Auto");

I came across this by looking up the documentation:
 <http://imagej.nih.gov/ij/docs/guide/146-30.html#toc-Subsection-30.10>, and
 <http://imagej.nih.gov/ij/docs/menus/analyze.html#hist>

Would this make less it useless?

-tiago

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[Agustin Lobo]

Thanks,
This is better, but having the same kind of interactive setting as for
the contrast
or the threshold would be more friendly.
Agus

On Fri, Apr 12, 2013 at 4:09 PM, Tiago Ferreira
<[hidden email]> wrote:

> Hi Agustin,
>
>> As my images have outliers, the current Analyze/Histogram is pretty useless.
>> Is there a plugin for a histogram in which you can set the min and max
>> values for the plot?
>
> When you call the command holding "Alt" ("Alt"+"H") you can specify the range of
> the histogram. You can also set the limits using a simple macro, e.g.:
>
> getStatistics(area, mean, min, max, std);
> run("Histogram", "bins=256 x_min="+ mean-std +" x_max="+ mean+std +" y_max=Auto");
>
> I came across this by looking up the documentation:
>  <http://imagej.nih.gov/ij/docs/guide/146-30.html#toc-Subsection-30.10>, and
>  <http://imagej.nih.gov/ij/docs/menus/analyze.html#hist>
>
> Would this make less it useless?
>
> -tiago
>
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> ImageJ mailing list: http://imagej.nih.gov/ij/list.html

... [show rest of quote]

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[Agustin Lobo]

Thanks. Just installed the whole thing using the Fiji upgrading utility.
It's nicer, but cannot see how I can set a different range.
Agus

On Fri, Apr 12, 2013 at 3:58 PM, Unruh, Jay <[hidden email]> wrote:

> I should mention that the plugin of interest is actually the Plugins>Image Tools>mask hist jru v1.  Just set the mask to null.
>
> Jay
>
> -----Original Message-----
> From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Unruh, Jay
> Sent: Friday, April 12, 2013 8:54 AM
> To: [hidden email]
> Subject: Re: interactive histogram
>
> Hi Agus,
>
> My histograming tools allow for min/max adjustment and logarithmic display and binning.  You can get them at http://research.stowers.org/imagejplugins.
>
> Jay
>
> -----Original Message-----
> From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Agustin Lobo
> Sent: Friday, April 12, 2013 6:00 AM
> To: [hidden email]
> Subject: interactive histogram
>
> As my images have outliers, the current Analyze/Histogram is pretty useless.
> Is there a plugin for a histogram in which you can set the min and max values for the plot?
>
> Thanks
>
> Agus
>
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> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>
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>
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... [show rest of quote]

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