Re: Maxima in a plot profile

Posted by Jerome Mutterer-3 on
URL: http://imagej.273.s1.nabble.com/Maxima-in-a-plot-profile-tp5003690p5003694.html

Eric,
As far as I know, the Straightener always fits a spline before
straightening. What you can do to get a fitted spline closer to your
original polygon line, is interpolate it at 1 pixel intervals before
straightening, using the Edit > Selection > Interpolate command.
Jerome

On 28 June 2013 10:09, Eric Denarier <[hidden email]> wrote:

> Thanks Jerome,
> That was the problem.
> But I have an other one : If I draw a segmented line and
> Edit/Selection/Straigthen, it makes a curve that doesn't overlay the
> original line. Can it be fix ?
>
>
> Eric Denarier
> Grenoble Institut des Neurosciences
> Inserm U836
> Chemin Fortuné Ferrini
> 38700 La Tronche
> France
>
>
> Tél :[phone]
> Fax :[phone]
>
> http://neurosciences.ujf-**grenoble.fr/<http://neurosciences.ujf-grenoble.fr/>
>
> Le 28/06/2013 09:49, Jerome Mutterer a écrit :
>
>> Hi Eric,
>>
>> You must have Edit > Options > Profile Plot Options > Interpolate line
>> profiles option checked.
>> Uncheck it if you want uninterpolated pixel values.
>>
>> The pixel values along a line are retrieved like this:
>> https://github.com/fiji/**imagej1/blob/master/ij/gui/**Line.java#L394<https://github.com/fiji/imagej1/blob/master/ij/gui/Line.java#L394>
>>
>> For 1 pixel wide lines like yours the interpolation code is there:
>> https://github.com/fiji/**imagej1/blob/master/ij/**
>> process/ImageProcessor.java#**L962<https://github.com/fiji/imagej1/blob/master/ij/process/ImageProcessor.java#L962>
>>
>> and finally calls the getInterpolatedValue(x,y) method here:
>> https://github.com/fiji/**imagej1/blob/master/ij/**
>> process/ImageProcessor.java#**L1694<https://github.com/fiji/imagej1/blob/master/ij/process/ImageProcessor.java#L1694>
>>
>> Sincerely,
>>
>> Jerome.
>>
>> On 28 June 2013 08:44, Eric Denarier <[hidden email]**>
>> wrote:
>>
>>  Dear All,
>>> I would like to know how the values are calculated in a plot profile :
>>> I have a small image (Stack-2.tif) in which I draw a line over the pixel
>>> of maximum intensity (value : 2068).
>>> The line is traced
>>>   If I use Analyze/Plot Profile and list the values from a 1 pixel width
>>> line the maximum is 1921.58 (Values on the left of plot profile.png). On
>>> the right it's with a width of 3 pixels.
>>> How does the values are calculated ? How can I get the real max value (
>>> in
>>> this case 2068) of a line across a picture ?
>>>
>>> Thanks for your comment
>>>
>>> -- ich
>>>
>>> Eric Denarier
>>> Grenoble Institut des Neurosciences
>>> Inserm U836
>>> Chemin Fortuné Ferrini
>>> 38700 La Tronche
>>> France
>>>
>>>
>>> Tél :[phone]
>>> Fax :[phone]
>>>
>>> http://neurosciences.ujf-**gre**noble.fr/ <http://grenoble.fr/><http://*
>>> *neurosciences.ujf-grenoble.fr/ <http://neurosciences.ujf-grenoble.fr/>*
>>> *>
>>>
>>>
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