The checkbox “Pixel units” is equivalent to the checkbox with the same label in the standard IJ Analyze Particels… function and uses pixels instead of calibrated units to limit the analysis with the respective parameters. The new version from 11th February 2018 (included from BioVoxxel_Plugins-2.0.1) on contains 2 checkboxes which enable the choice between pixel and calibrated units in images which are spatially calibrated. Shape descriptors which are not available under “Analyze Particles…” in IJ or Fiji so far are:Įxtent = / Ĭompactness = / įeret’s AR = / Ĭoefficient of variance (CoV) = / Tipp: use the “Shape Descriptor Maps” macro to figure out possible cut-off value combinations for your analysis which you can then use in the Extended Particle Analyzer. This corrects the particle count for edge touching particles. The option “Keep borders (correction)” eliminates particles from 2 edges and keeps particles touching the two borders of choice. “Redirect” redirects the analysis to a grayscale image which enables to analyze skewness, kurtosis as well as the new measure coefficient of variance (cov). You can use integers as well as numbers containing decimal places. How to: Key in minimal and maximal exclusion values connected with a hyphen. The output types are the same as for the Analyze › Analyze Particles.Įxample: If you want to extract/analyze only particles with a certain Feret’s Angle or exclude elongated structures using the aspect ratio (AR) or circularity you can specify so in the initial dialog box. Thus, setting minimal and maximal exclusion ranges of different parameters enables to extract particles from a binary image. It enables the user to further restrict the analysis on particles according to many more parameter spezifications of shape descriptors and angle orientations. Purpose: The “Extended Particle Analyzer” is based on the ImageJ “Analyze Particles…” command. The BioVoxxel Figure Tools can be cited separately from the toolbox plugins as follows: If you find those functions helpful and use it to generate results you publish, please consider to cite: You will find all functions of the BioVoxxel Toolbox under the icon of the green BioVoxxel cube after selecting BioVoxxel Toolbox from the More Tools Icon (last Icon in the ImageJ/Fiji Icon list with the double arrow). If you’d like to help, check out the how to help guide! The content of this page has not been vetted since shifting away from MediaWiki.
0 Comments
Leave a Reply. |
Details
AuthorWrite something about yourself. No need to be fancy, just an overview. ArchivesCategories |