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Software | Centro di Ricerca Enrico Piaggio
<!DOCTYPE html> <html lang="en"> <head> <title>Software | Centro di Ricerca Enrico Piaggio</title> <meta charset="utf-8"> <meta name="description" content=""> <meta name="viewport" content="width=device-width, initial-scale=1, minimum-scale=1, maximum-scale=1" /> <link rel="shortcut icon" href="/favicon.ico"> <meta http-equiv="Content-Type" content="text/html; charset=utf-8" /> <meta name="description" content="The Research Center “E. Piaggio” of the University of Pisa is devoted to multidisciplinary research in the fields of bioengineering and robotics, and to the training of personnel for careers in Research and Development." /> <meta name="keywords" content="Centro E. 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</ul></nav> </div> </div> </div> </div> </section> </header> <!--div class="gray-line"></div--> <main class="site-content" id="content"> <section class="page-title-bar"> <div class="container"> <div class="row"> <div class="col-lg-12"> <h1>Software</h1> <ul> <h2 class="element-invisible">You are here</h2><div class="breadcrumb"><span class="inline odd first"><a href="/">Home</a></span> <span class="delimiter">»</span> <span class="inline even"><a href="/research/research">Research</a></span> <span class="delimiter">»</span> <span class="inline odd last"><a href="/results">Results</a></span></div> </ul> </div> </div> </div> </section> <div class="container"> </div> <section> <div class="container"> <div class="row"> <div class="col-md-8 col-lg-8 main-content"> <div class="view view-RecentSoftware view-id-RecentSoftware view-display-id-page view-dom-id-9db149360bc64e34533a849dfca64860"> <div class="view-content"> <div class="views-row views-row-1 views-row-odd views-row-first"> <div id="node-3425" class="node node-software node-teaser clearfix" about="/smrg-algorithm-smart-region-growing-3d-neuron-segmentation" typeof="sioc:Item foaf:Document"> <div class="col-md-12"> <article class="project-item blog-item blog-item-single margin-bottom-20"> <div class="info"> <h4 ><a href="/smrg-algorithm-smart-region-growing-3d-neuron-segmentation">SmRG algorithm - a smart region growing for 3D neuron segmentation</a></h4> <span property="dc:title" content="SmRG algorithm - a smart region growing for 3D neuron segmentation" class="rdf-meta element-hidden"></span><span property="sioc:num_replies" content="0" datatype="xsd:integer" class="rdf-meta element-hidden"></span> <div class="field field-name-body field-type-text-with-summary field-label-hidden"><div class="field-items"><div class="field-item even" property="content:encoded"><p>Accurately mapping the brain at the micro-scale is still a challenge in cellular neuroscience. While notable success has been reached in the field of tissue clarification and confocal imaging to obtain high-fidelity maps of three-dimensional neuron organization, neuron segmentation is still far away of ground-truth and sometimes manual segmentation performed by experts may be needed.</p></div></div></div> </div> </article> </div> </div> </div> <div class="views-row views-row-2 views-row-even"> <div id="node-3080" class="node node-software node-teaser clearfix" about="/mansegtool" typeof="sioc:Item foaf:Document"> <div class="col-md-12"> <article class="project-item blog-item blog-item-single margin-bottom-20"> <div class="info"> <h4 ><a href="/mansegtool">ManSegTool</a></h4> <span property="dc:title" content="ManSegTool" class="rdf-meta element-hidden"></span><span property="sioc:num_replies" content="0" datatype="xsd:integer" class="rdf-meta element-hidden"></span> <div class="field field-name-body field-type-text-with-summary field-label-hidden"><div class="field-items"><div class="field-item even" property="content:encoded"><p>ManSegTool is short for "MANual SEGmentation TOOL" software.</p> <p></div></div></div> </div> </article> </div> </div> </div> <div class="views-row views-row-3 views-row-odd"> <div id="node-2924" class="node node-software node-teaser clearfix" about="/cnr-mpi-tool" typeof="sioc:Item foaf:Document"> <div class="col-md-12"> <article class="project-item blog-item blog-item-single margin-bottom-20"> <div class="info"> <h4 ><a href="/cnr-mpi-tool">CNR & MPI tool</a></h4> <span property="dc:title" content="CNR & MPI tool" class="rdf-meta element-hidden"></span><span property="sioc:num_replies" content="0" datatype="xsd:integer" class="rdf-meta element-hidden"></span> <div class="field field-name-body field-type-text-with-summary field-label-hidden"><div class="field-items"><div class="field-item even" property="content:encoded"><p>CNR & MPI tool is a user-friendly software developed for the evaluation of the image quality in both RGB and image stacks aquired using a confocal microscope.</p> <p> </p> <p></div></div></div> </div> </article> </div> </div> </div> <div class="views-row views-row-4 views-row-even"> <div id="node-2626" class="node node-software node-teaser clearfix" about="/content/creap-tool" typeof="sioc:Item foaf:Document"> <div class="col-md-12"> <article class="project-item blog-item blog-item-single margin-bottom-20"> <div class="info"> <h4 ><a href="/content/creap-tool">CrEAP tool</a></h4> <span property="dc:title" content="CrEAP tool" class="rdf-meta element-hidden"></span><span property="sioc:num_replies" content="0" datatype="xsd:integer" class="rdf-meta element-hidden"></span> <div class="field field-name-body field-type-text-with-summary field-label-hidden"><div class="field-items"><div class="field-item even" property="content:encoded"><p>CrEAP is a user-friendly tool developed for the evaluation of the displacement of optical trackers on a membrane during the stretching.</p> <p> </p> <p></div></div></div> </div> </article> </div> </div> </div> <div class="views-row views-row-5 views-row-odd"> <div id="node-2174" class="node node-software node-teaser clearfix" about="/content/stegun-download" typeof="sioc:Item foaf:Document"> <div class="col-md-12"> <article class="project-item blog-item blog-item-single margin-bottom-20"> <div class="info"> <h4 ><a href="/content/stegun-download">STEGUN* DOWNLOAD</a></h4> <span property="dc:title" content="STEGUN* DOWNLOAD" class="rdf-meta element-hidden"></span><span property="sioc:num_replies" content="0" datatype="xsd:integer" class="rdf-meta element-hidden"></span> <div class="field field-name-body field-type-text-with-summary field-label-hidden"><div class="field-items"><div class="field-item even" property="content:encoded"><p>S.T.E.GU.N. (acronyms for Slice Thickness Evaluation GUi for Non-expert users) is an open-source tool developed in Matlab (the MathWorks-sTM Inc., Massachusetts, USA).</p> <p>Developed at the Research Center "E. Piaggio", University of Pisa, the freeware can be downloaded <a href="https://www.dropbox.com/sh/g1nc1o1mvfwf5wu/AABAy04uxsCrMPdC3gDaZDGSa?dl=0">at this link</a> and the source code can be download <a href="https://github.com/CentroEPiaggio/stegun">at this link</a>.</p> <p></div></div></div> </div> </article> </div> </div> </div> <div class="views-row views-row-6 views-row-even"> <div id="node-2154" class="node node-software node-teaser clearfix" about="/content/histoology-download" typeof="sioc:Item foaf:Document"> <div class="col-md-12"> <article class="project-item blog-item blog-item-single margin-bottom-20"> <div class="info"> <h4 ><a href="/content/histoology-download">HisTOOLogy download</a></h4> <span property="dc:title" content="HisTOOLogy download" class="rdf-meta element-hidden"></span><span property="sioc:num_replies" content="0" datatype="xsd:integer" class="rdf-meta element-hidden"></span> <div class="field field-name-body field-type-text-with-summary field-label-hidden"><div class="field-items"><div class="field-item even" property="content:encoded"><p>Developed at the Research Center "E. Piaggio", University of Pisa, the freeware (and few images we used to validate the tool) can be downloaded <a href="https://www.dropbox.com/sh/gk5y8a7hcc76bfk/AACjdPJYfPNVzPK6QYfX4tSAa?dl=0">at this link.</a> The source code can be downloaded <a href="https://github.com/CentroEPiaggio/HisTOOLogy">at this link</a>.</p> <p></div></div></div> </div> </article> </div> </div> </div> <div class="views-row views-row-7 views-row-odd"> <div id="node-2100" class="node node-software node-promoted node-teaser clearfix" about="/content/soft-tool" typeof="sioc:Item foaf:Document"> <div class="col-md-12"> <article class="project-item blog-item blog-item-single margin-bottom-20"> <div class="info"> <h4 ><a href="/content/soft-tool">Soft Tool</a></h4> <span property="dc:title" content="Soft Tool" class="rdf-meta element-hidden"></span><span property="sioc:num_replies" content="0" datatype="xsd:integer" class="rdf-meta element-hidden"></span> <div class="field field-name-body field-type-text-with-summary field-label-hidden"><div class="field-items"><div class="field-item even" property="content:encoded"><p><a href="https://github.com/CentroEPiaggio">https://github.com/CentroEPiaggio</a></p> </div></div></div> </div> </article> </div> </div> </div> <div class="views-row views-row-8 views-row-even"> <div id="node-1945" class="node node-software node-teaser clearfix" about="/content/sphyga-downloads" typeof="sioc:Item foaf:Document"> <div class="col-md-12"> <article class="project-item blog-item blog-item-single margin-bottom-20"> <div class="info"> <h4 ><a href="/content/sphyga-downloads">Sphyga downloads</a></h4> <span property="dc:title" content="Sphyga downloads" class="rdf-meta element-hidden"></span><span property="sioc:num_replies" content="0" datatype="xsd:integer" class="rdf-meta element-hidden"></span> <div class="field field-name-body field-type-text-with-summary field-label-hidden"><div class="field-items"><div class="field-item even" property="content:encoded"><p>Sphyga (acronism for SPherical HYdrogel Generator) is a compact open-source tool for the fabrication of highly reproducible hydrogel based microbeads with predictable shapes and diameters ranging from 100 to 2000<span style="color: rgb(0, 0, 0); font-family: arial, helvetica, clean, sans-serif; font-size: 13px; line-height: 17.9998016357422px;"> µm.</span></p> <p> </p> <p></div></div></div> </div> </article> </div> </div> </div> <div class="views-row views-row-9 views-row-odd views-row-last"> <div id="node-1561" class="node node-software node-teaser clearfix" about="/nemo-neuron-morphological-analysis-tool" typeof="sioc:Item foaf:Document"> <div class="col-md-12"> <article class="project-item blog-item blog-item-single margin-bottom-20"> <div class="info"> <h4 ><a href="/nemo-neuron-morphological-analysis-tool">NEMO (NEuron MOrphological analysis tool)</a></h4> <span property="dc:title" content="NEMO (NEuron MOrphological analysis tool)" class="rdf-meta element-hidden"></span><span property="sioc:num_replies" content="0" datatype="xsd:integer" class="rdf-meta element-hidden"></span> <div class="field field-name-body field-type-text-with-summary field-label-hidden"><div class="field-items"><div class="field-item even" property="content:encoded"><p>Co-developed at the Italian National Council of Research Institute of Clinical Physiology (IFC-CNR) and the Research Center "E. Piaggio", University of Pisa, the freeware can be downloaded <a href="https://www.dropbox.com/sh/6uimpvd8ado9dzn/AACEfLPBaJJyN5i0ghVCYGVHa?dl=0">at this link</a>. The source code can be downloaded <a href="https://github.com/CentroEPiaggio/NEMO">at this link</a>.</p> <p> </p></div></div></div> </div> </article> </div> </div> </div> </div> </div> </div> <div class="col-md-4 col-lg-4"> <aside class="widget margin-bottom-20 bg-block-1 contextual-links-region"><h3>Latest News & Press</h3><div class="widget-inner"><div class="view view-2016 view-id-2016 view-display-id-block_6 view-dom-id-39efbc8f0f9f25d763d944f30ab8d077"> <div class="view-content"> <div class="views-row views-row-1 views-row-odd views-row-first"> <p> <a href="/ricostruire-il-colon-danneggiato-con-la-biostampa-4d">Ricostruire il colon danneggiato con la biostampa 4D</a> </p> </div> <div class="views-row views-row-2 views-row-even"> <p> <a href="/giornata-delle-donne-nelle-stem-la-neuroscienziata-sonia-cerchio-0">Giornata delle donne nelle stem: la neuroscienziata Sonia Cerchio</a> </p> </div> <div class="views-row views-row-3 views-row-odd"> <p> <a 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