ImageJ-macros: Newshttp://dev.mri.cnrs.fr/http://dev.mri.cnrs.fr/favicon.ico?14046506542019-01-11T14:29:58ZMRI's Redmine
Redmine Cell Invasion tool and nuclei countinghttp://dev.mri.cnrs.fr/news/132019-01-11T14:29:58ZVolker Baeckervolker.baecker@mri.cnrs.fr
<p>The tool allows to measure the area of the invading spheroïd in a 3D cell invasion assay. It can also count and measure the area of the nuclei within the spheroïd. Check out the tool on the <a href="https://github.com/MontpellierRessourcesImagerie/imagej_macros_and_scripts/wiki/Analyze-Spheroid-Cell-Invasion-In-3D-Matrix" class="external">wiki</a></p> BioImage Information Indexhttp://dev.mri.cnrs.fr/news/112014-12-11T09:52:05ZVolker Baeckervolker.baecker@mri.cnrs.fr
<p>The BioImage Information Index lists software packages, plate-forms, sample data and workflows for biological image analysis. It helps image analysts and biologists to find the right tools to solve a given image analysis problem. I participated in the taggathon that is part of the EuBIAS 2015. The aim of the taggathon was to kick-start the index by adding a large number of workflows. About 150 workflows have been added including a number of MRI's "Biological Image Analysis Toolsets".<br />You can access the BioImage Information Index here: <a href="http://biii.eu/" class="external">biii.eu</a>.</p> MRI Artemia Tools online http://dev.mri.cnrs.fr/news/92013-07-04T13:52:27ZVolker Baeckervolker.baecker@mri.cnrs.fr
<p>The MRI Artemia Tools are now available <a href="http://dev.mri.cnrs.fr/projects/imagej-macros/wiki/Artemia_Tools" class="external">here</a>.<br />The Artemia Tools help to calculate the normalized redness of Artemia in images. They have been used for<br />Rode NO, Lievens EJP, Flaven E, Segard A, Jabbour-Zahab R, Sanchez MI, et al.<br /><a href="https://www.ncbi.nlm.nih.gov/pubmed/23351125" class="external">Why join groups? Lessons from parasite-manipulated Artemia</a>.<br />Ostfeld R, editor. Ecology Letters. 2013 Apr;16(4):493–501.</p> enhancement of the root toolshttp://dev.mri.cnrs.fr/news/82013-06-12T12:31:16ZVolker Baeckervolker.baecker@mri.cnrs.fr
<p>The new version provides a better way to measure the angle of the root by using two independent lines that intersect the base line.<br />It prevents the closing of the active window when pressing the m-button, if the active window is not the window of the zoomed region.<br />Find the new version at<br /><a class="external" href="http://dev.mri.cnrs.fr/projects/imagej-macros/wiki/Root_Tools">http://dev.mri.cnrs.fr/projects/imagej-macros/wiki/Root_Tools</a></p> Ovocyte Toolhttp://dev.mri.cnrs.fr/news/62013-06-10T11:38:22ZAdmin MRIolivier.miquel@mri.cnrs.fr
<p>The tool acquires images from the live window of the camera and measures the surface of the ovocyte in the image in a configurable time interval.<br />See <a href="http://dev.mri.cnrs.fr/projects/imagej-macros/wiki/Ovocyte_Tool" class="wiki-page">Ovocyte Tool</a> for more information.</p> Publication using the "Arabidopsis Seedlings Tool"http://dev.mri.cnrs.fr/news/42013-03-13T12:24:32ZVolker Baeckervolker.baecker@mri.cnrs.fr
<p>The <a href="http://dev.mri.cnrs.fr/projects/imagej-macros/wiki/Arabidopsis_Seedlings_Tool" class="external">Arabidopsis Seedlings Tool</a> allows to measure the surface of green pixels per well in images containing multiple wells. It can be run in batch mode on a series of images. It writes a spreadsheet file with the measured area per well and saves a control image showing the green surface that has been detected per well.</p>
<p>This tool has been used for the system described in the publication:</p>
<p>Macherel D, Abdelilah BENAMAR, Pierart A, <strong>Baecker V</strong>, Avelange-Macherel M-H, Rolland A, Gaudichon S, Di Gioia L. <br /><a href="http://www.dovepress.com/articles.php?article_id=12330" class="external">Simple system using natural mineral water for high-throughput phenotyping of Arabidopsis thaliana seedlings in liquid culture.</a><br />International Journal of High Throughput Screening 2013 Feb;1.</p>