{"id":435,"date":"2024-07-02T11:02:42","date_gmt":"2024-07-02T15:02:42","guid":{"rendered":"https:\/\/umaine.edu\/cobre\/?page_id=435"},"modified":"2025-04-30T14:44:44","modified_gmt":"2025-04-30T18:44:44","slug":"image-analysis-software-and-analysis-services","status":"publish","type":"page","link":"https:\/\/umaine.edu\/cobre\/microscopy-and-image-analysis-core\/image-analysis-software-and-analysis-services\/","title":{"rendered":"Image Analysis \u2013 Software and Analysis Services"},"content":{"rendered":"<style>.kb-row-layout-wrap.wp-block-kadence-rowlayout.kb-row-layout-id435_0429a8-6e{margin-top:-20px;}.kb-row-layout-id435_0429a8-6e > .kt-row-column-wrap{align-content:start;}:where(.kb-row-layout-id435_0429a8-6e > .kt-row-column-wrap) > .wp-block-kadence-column{justify-content:start;}.kb-row-layout-id435_0429a8-6e > .kt-row-column-wrap{column-gap:80px;row-gap:var(--global-kb-gap-lg, 4rem);max-width:1268px;padding-top:75px;padding-bottom:75px;}.kb-row-layout-id435_0429a8-6e > .kt-row-column-wrap > div:not(.added-for-specificity){grid-column:initial;}.kb-row-layout-id435_0429a8-6e > .kt-row-column-wrap{grid-template-columns:repeat(2, minmax(0, 1fr));}.kb-row-layout-id435_0429a8-6e{background-image:linear-gradient(235deg,rgb(8,46,88) 0%,rgb(65,118,161) 100%);}.kb-row-layout-id435_0429a8-6e > .kt-row-layout-overlay{opacity:0.30;}.kb-row-layout-id435_0429a8-6e .kt-row-layout-bottom-sep{height:250px;}.kb-row-layout-id435_0429a8-6e .kt-row-layout-bottom-sep svg{width:125%;}.kb-row-layout-id435_0429a8-6e .kt-row-layout-bottom-sep svg{fill:#ffffff!important;}@media all and (max-width: 1024px){.kb-row-layout-id435_0429a8-6e > .kt-row-column-wrap{padding-right:50px;padding-left:50px;grid-template-columns:repeat(2, minmax(0, 1fr));}}@media all and (max-width: 1024px){.kb-row-layout-id435_0429a8-6e > .kt-row-column-wrap > .wp-block-kadence-column:nth-child(1 of *:not(style)){order:4;order:4;}}@media all and (max-width: 1024px){.kb-row-layout-id435_0429a8-6e > 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*:not(style)){order:31;}.kb-row-layout-id435_0429a8-6e .kt-row-layout-bottom-sep{height:px;}.kb-row-layout-id435_0429a8-6e .kt-row-layout-bottom-sep svg{width:%;}}<\/style><div class=\"kb-row-layout-wrap kb-row-layout-id435_0429a8-6e alignfull kt-row-has-bg um-UMBHFeatureLeftTextWithImage wp-block-kadence-rowlayout\"><div class=\"kt-row-column-wrap kt-has-4-columns kt-row-layout-two-grid kt-tab-layout-inherit kt-mobile-layout-row kt-row-valign-top kb-theme-content-width\">\n<style>.kadence-column435_2d7cd8-fd > .kt-inside-inner-col{display:flex;}.kadence-column435_2d7cd8-fd > .kt-inside-inner-col{padding-top:25px;padding-right:65px;padding-bottom:25px;padding-left:65px;}.kadence-column435_2d7cd8-fd > .kt-inside-inner-col,.kadence-column435_2d7cd8-fd > .kt-inside-inner-col:before{border-top-left-radius:0px;border-top-right-radius:35px;border-bottom-right-radius:0px;border-bottom-left-radius:35px;}.kadence-column435_2d7cd8-fd > .kt-inside-inner-col{column-gap:var(--global-kb-gap-sm, 1rem);}.kadence-column435_2d7cd8-fd > .kt-inside-inner-col{flex-direction:column;justify-content:flex-start;align-items:flex-start;}.kadence-column435_2d7cd8-fd > .kt-inside-inner-col > .kb-image-is-ratio-size{align-self:stretch;}.kadence-column435_2d7cd8-fd > .kt-inside-inner-col > .wp-block-kadence-advancedgallery{align-self:stretch;}.kadence-column435_2d7cd8-fd > .kt-inside-inner-col > .aligncenter{width:100%;}.kt-row-column-wrap > .kadence-column435_2d7cd8-fd{align-self:flex-start;}.kt-inner-column-height-full:not(.kt-has-1-columns) > .wp-block-kadence-column.kadence-column435_2d7cd8-fd{align-self:auto;}.kt-inner-column-height-full:not(.kt-has-1-columns) > .wp-block-kadence-column.kadence-column435_2d7cd8-fd > .kt-inside-inner-col{flex-direction:column;justify-content:flex-start;}.kadence-column435_2d7cd8-fd > .kt-inside-inner-col{background-color:#ffffff;}.kadence-column435_2d7cd8-fd > .kt-inside-inner-col:before{opacity:0.3;}.kadence-column435_2d7cd8-fd{position:relative;}@media all and (max-width: 1024px){.kt-row-column-wrap > .kadence-column435_2d7cd8-fd{align-self:flex-start;}}@media all and (max-width: 1024px){.kt-inner-column-height-full:not(.kt-has-1-columns) > .wp-block-kadence-column.kadence-column435_2d7cd8-fd{align-self:auto;}}@media all and (max-width: 1024px){.kt-inner-column-height-full:not(.kt-has-1-columns) > .wp-block-kadence-column.kadence-column435_2d7cd8-fd > .kt-inside-inner-col{flex-direction:column;justify-content:flex-start;}}@media all and (max-width: 1024px){.kadence-column435_2d7cd8-fd > .kt-inside-inner-col{flex-direction:column;justify-content:flex-start;align-items:center;}}@media all and (max-width: 767px){.kadence-column435_2d7cd8-fd > .kt-inside-inner-col{padding-right:35px;padding-left:35px;flex-direction:column;justify-content:flex-start;align-items:center;}.kt-row-column-wrap > .kadence-column435_2d7cd8-fd{align-self:flex-start;}.kt-inner-column-height-full:not(.kt-has-1-columns) > .wp-block-kadence-column.kadence-column435_2d7cd8-fd{align-self:auto;}.kt-inner-column-height-full:not(.kt-has-1-columns) > .wp-block-kadence-column.kadence-column435_2d7cd8-fd > .kt-inside-inner-col{flex-direction:column;justify-content:flex-start;}}<\/style>\n<div class=\"wp-block-kadence-column kadence-column435_2d7cd8-fd\"><div class=\"kt-inside-inner-col\"><style>.wp-block-kadence-advancedheading.kt-adv-heading435_17e29a-6c, .wp-block-kadence-advancedheading.kt-adv-heading435_17e29a-6c[data-kb-block=\"kb-adv-heading435_17e29a-6c\"]{margin-right:-10px;text-align:left;font-size:32px;font-weight:900;font-style:normal;font-family:stratum-1-web;text-transform:uppercase;color:#082e58;}.wp-block-kadence-advancedheading.kt-adv-heading435_17e29a-6c mark.kt-highlight, .wp-block-kadence-advancedheading.kt-adv-heading435_17e29a-6c[data-kb-block=\"kb-adv-heading435_17e29a-6c\"] mark.kt-highlight{font-style:normal;color:#f76a0c;-webkit-box-decoration-break:clone;box-decoration-break:clone;padding-top:0px;padding-right:0px;padding-bottom:0px;padding-left:0px;}.wp-block-kadence-advancedheading.kt-adv-heading435_17e29a-6c img.kb-inline-image, .wp-block-kadence-advancedheading.kt-adv-heading435_17e29a-6c[data-kb-block=\"kb-adv-heading435_17e29a-6c\"] img.kb-inline-image{width:150px;vertical-align:baseline;}@media all and (max-width: 1024px){.wp-block-kadence-advancedheading.kt-adv-heading435_17e29a-6c, .wp-block-kadence-advancedheading.kt-adv-heading435_17e29a-6c[data-kb-block=\"kb-adv-heading435_17e29a-6c\"]{text-align:center!important;}}@media all and (max-width: 767px){.wp-block-kadence-advancedheading.kt-adv-heading435_17e29a-6c, .wp-block-kadence-advancedheading.kt-adv-heading435_17e29a-6c[data-kb-block=\"kb-adv-heading435_17e29a-6c\"]{text-align:center!important;}}<\/style>\n<h2 class=\"kt-adv-heading435_17e29a-6c wp-block-kadence-advancedheading\" data-kb-block=\"kb-adv-heading435_17e29a-6c\">Image Analysis \u2013 Software and Analysis Services<\/h2>\n\n\n<style>.wp-block-kadence-advancedheading.kt-adv-heading435_6eed46-86, .wp-block-kadence-advancedheading.kt-adv-heading435_6eed46-86[data-kb-block=\"kb-adv-heading435_6eed46-86\"]{font-style:normal;}.wp-block-kadence-advancedheading.kt-adv-heading435_6eed46-86 mark.kt-highlight, .wp-block-kadence-advancedheading.kt-adv-heading435_6eed46-86[data-kb-block=\"kb-adv-heading435_6eed46-86\"] mark.kt-highlight{font-style:normal;color:#f76a0c;-webkit-box-decoration-break:clone;box-decoration-break:clone;padding-top:0px;padding-right:0px;padding-bottom:0px;padding-left:0px;}.wp-block-kadence-advancedheading.kt-adv-heading435_6eed46-86 img.kb-inline-image, .wp-block-kadence-advancedheading.kt-adv-heading435_6eed46-86[data-kb-block=\"kb-adv-heading435_6eed46-86\"] img.kb-inline-image{width:150px;vertical-align:baseline;}<\/style>\n<p class=\"kt-adv-heading435_6eed46-86 wp-block-kadence-advancedheading\" data-kb-block=\"kb-adv-heading435_6eed46-86\">We are a full-service facility offering access to multiple image analysis software packages and providing expert consulting for analysis projects.<\/p>\n\n\n<style>.wp-block-kadence-advancedheading.kt-adv-heading435_7af301-9c, .wp-block-kadence-advancedheading.kt-adv-heading435_7af301-9c[data-kb-block=\"kb-adv-heading435_7af301-9c\"]{font-style:normal;}.wp-block-kadence-advancedheading.kt-adv-heading435_7af301-9c mark.kt-highlight, .wp-block-kadence-advancedheading.kt-adv-heading435_7af301-9c[data-kb-block=\"kb-adv-heading435_7af301-9c\"] mark.kt-highlight{font-style:normal;color:#f76a0c;-webkit-box-decoration-break:clone;box-decoration-break:clone;padding-top:0px;padding-right:0px;padding-bottom:0px;padding-left:0px;}.wp-block-kadence-advancedheading.kt-adv-heading435_7af301-9c img.kb-inline-image, .wp-block-kadence-advancedheading.kt-adv-heading435_7af301-9c[data-kb-block=\"kb-adv-heading435_7af301-9c\"] img.kb-inline-image{width:150px;vertical-align:baseline;}<\/style>\n<p class=\"kt-adv-heading435_7af301-9c wp-block-kadence-advancedheading\" data-kb-block=\"kb-adv-heading435_7af301-9c\">Our offerings include ImageJ for straightforward analysis as well as the Imaris for Core Facilities Package for high-content analysis and image processing.<\/p>\n\n\n<style>.wp-block-kadence-advancedheading.kt-adv-heading435_e13786-76, .wp-block-kadence-advancedheading.kt-adv-heading435_e13786-76[data-kb-block=\"kb-adv-heading435_e13786-76\"]{font-style:normal;}.wp-block-kadence-advancedheading.kt-adv-heading435_e13786-76 mark.kt-highlight, .wp-block-kadence-advancedheading.kt-adv-heading435_e13786-76[data-kb-block=\"kb-adv-heading435_e13786-76\"] mark.kt-highlight{font-style:normal;color:#f76a0c;-webkit-box-decoration-break:clone;box-decoration-break:clone;padding-top:0px;padding-right:0px;padding-bottom:0px;padding-left:0px;}.wp-block-kadence-advancedheading.kt-adv-heading435_e13786-76 img.kb-inline-image, .wp-block-kadence-advancedheading.kt-adv-heading435_e13786-76[data-kb-block=\"kb-adv-heading435_e13786-76\"] img.kb-inline-image{width:150px;vertical-align:baseline;}<\/style>\n<p class=\"kt-adv-heading435_e13786-76 wp-block-kadence-advancedheading\" data-kb-block=\"kb-adv-heading435_e13786-76\"><a href=\"https:\/\/imagej.net\/software\/fiji\/downloads\">ImageJ<\/a> is a versatile platform developed by the NIH for all-access analysis needs.<\/p>\n\n\n<style>.wp-block-kadence-advancedheading.kt-adv-heading435_42a177-a3, .wp-block-kadence-advancedheading.kt-adv-heading435_42a177-a3[data-kb-block=\"kb-adv-heading435_42a177-a3\"]{font-style:normal;}.wp-block-kadence-advancedheading.kt-adv-heading435_42a177-a3 mark.kt-highlight, .wp-block-kadence-advancedheading.kt-adv-heading435_42a177-a3[data-kb-block=\"kb-adv-heading435_42a177-a3\"] mark.kt-highlight{font-style:normal;color:#f76a0c;-webkit-box-decoration-break:clone;box-decoration-break:clone;padding-top:0px;padding-right:0px;padding-bottom:0px;padding-left:0px;}.wp-block-kadence-advancedheading.kt-adv-heading435_42a177-a3 img.kb-inline-image, .wp-block-kadence-advancedheading.kt-adv-heading435_42a177-a3[data-kb-block=\"kb-adv-heading435_42a177-a3\"] img.kb-inline-image{width:150px;vertical-align:baseline;}<\/style>\n<p class=\"kt-adv-heading435_42a177-a3 wp-block-kadence-advancedheading\" data-kb-block=\"kb-adv-heading435_42a177-a3\">Imaris is a user-friendly and extremely powerful package that excels in visually presenting 3D and 4D datasets. It boasts robust capabilities for conducting quantitative analyses on multi-dimensional images, and seamlessly manages a wide array of commercial fluorescence microscopy file formats.<\/p>\n\n\n<style>.wp-block-kadence-advancedheading.kt-adv-heading435_bd26b5-e5, .wp-block-kadence-advancedheading.kt-adv-heading435_bd26b5-e5[data-kb-block=\"kb-adv-heading435_bd26b5-e5\"]{font-style:normal;}.wp-block-kadence-advancedheading.kt-adv-heading435_bd26b5-e5 mark.kt-highlight, .wp-block-kadence-advancedheading.kt-adv-heading435_bd26b5-e5[data-kb-block=\"kb-adv-heading435_bd26b5-e5\"] mark.kt-highlight{font-style:normal;color:#f76a0c;-webkit-box-decoration-break:clone;box-decoration-break:clone;padding-top:0px;padding-right:0px;padding-bottom:0px;padding-left:0px;}.wp-block-kadence-advancedheading.kt-adv-heading435_bd26b5-e5 img.kb-inline-image, .wp-block-kadence-advancedheading.kt-adv-heading435_bd26b5-e5[data-kb-block=\"kb-adv-heading435_bd26b5-e5\"] img.kb-inline-image{width:150px;vertical-align:baseline;}<\/style>\n<p class=\"kt-adv-heading435_bd26b5-e5 wp-block-kadence-advancedheading\" data-kb-block=\"kb-adv-heading435_bd26b5-e5\">Our Imaris workstation, built by Puget Systems, is fully equipped with all Imaris packages including ClearView deconvolution and Imaris Stitcher. It features a powerful AMD Ryzen Threadripper PRO 5975WX 32-core processor, 512 GB of RAM, and NVIDIA RTX 4000 Ada Generation graphics card, ensuring top-notch performance for advanced imaging data analysis.<\/p>\n\n\n<style>.wp-block-kadence-advancedheading.kt-adv-heading435_050187-1b, .wp-block-kadence-advancedheading.kt-adv-heading435_050187-1b[data-kb-block=\"kb-adv-heading435_050187-1b\"]{font-style:normal;}.wp-block-kadence-advancedheading.kt-adv-heading435_050187-1b mark.kt-highlight, .wp-block-kadence-advancedheading.kt-adv-heading435_050187-1b[data-kb-block=\"kb-adv-heading435_050187-1b\"] mark.kt-highlight{font-style:normal;color:#f76a0c;-webkit-box-decoration-break:clone;box-decoration-break:clone;padding-top:0px;padding-right:0px;padding-bottom:0px;padding-left:0px;}.wp-block-kadence-advancedheading.kt-adv-heading435_050187-1b img.kb-inline-image, .wp-block-kadence-advancedheading.kt-adv-heading435_050187-1b[data-kb-block=\"kb-adv-heading435_050187-1b\"] img.kb-inline-image{width:150px;vertical-align:baseline;}<\/style>\n<p class=\"kt-adv-heading435_050187-1b wp-block-kadence-advancedheading\" data-kb-block=\"kb-adv-heading435_050187-1b\">Dr. Zhengxin Ma and Dr. Robert Wheeler are available for image analysis consultation. Please email Dr. Ma at <a href=\"mailto:zhengxin.ma@maine.edu\">zhengxin.ma@maine.edu<\/a>.<\/p>\n<\/div><\/div>\n\n\n<style>.kadence-column435_072fba-78 > .kt-inside-inner-col{display:flex;}.kadence-column435_072fba-78 > .kt-inside-inner-col,.kadence-column435_072fba-78 > .kt-inside-inner-col:before{border-top-left-radius:0px;border-top-right-radius:0px;border-bottom-right-radius:0px;border-bottom-left-radius:0px;}.kadence-column435_072fba-78 > .kt-inside-inner-col{column-gap:var(--global-kb-gap-sm, 1rem);}.kadence-column435_072fba-78 > .kt-inside-inner-col{flex-direction:column;justify-content:center;}.kadence-column435_072fba-78 > .kt-inside-inner-col > .aligncenter{width:100%;}.kt-row-column-wrap > .kadence-column435_072fba-78{align-self:center;}.kt-inner-column-height-full:not(.kt-has-1-columns) > .wp-block-kadence-column.kadence-column435_072fba-78{align-self:auto;}.kt-inner-column-height-full:not(.kt-has-1-columns) > .wp-block-kadence-column.kadence-column435_072fba-78 > .kt-inside-inner-col{flex-direction:column;justify-content:center;}.kadence-column435_072fba-78 > .kt-inside-inner-col:before{opacity:0.3;}.kadence-column435_072fba-78{position:relative;}@media all and (max-width: 1024px){.kadence-column435_072fba-78 > .kt-inside-inner-col{padding-right:100px;padding-left:100px;flex-direction:column;justify-content:center;}}@media all and (max-width: 1024px){.kt-row-column-wrap > .kadence-column435_072fba-78{align-self:center;}}@media all and (max-width: 1024px){.kt-inner-column-height-full:not(.kt-has-1-columns) > .wp-block-kadence-column.kadence-column435_072fba-78{align-self:auto;}}@media all and (max-width: 1024px){.kt-inner-column-height-full:not(.kt-has-1-columns) > .wp-block-kadence-column.kadence-column435_072fba-78 > .kt-inside-inner-col{flex-direction:column;justify-content:center;}}@media all and (max-width: 767px){.kadence-column435_072fba-78 > .kt-inside-inner-col{padding-right:0px;padding-left:0px;flex-direction:column;justify-content:center;}.kt-row-column-wrap > .kadence-column435_072fba-78{align-self:center;}.kt-inner-column-height-full:not(.kt-has-1-columns) > .wp-block-kadence-column.kadence-column435_072fba-78{align-self:auto;}.kt-inner-column-height-full:not(.kt-has-1-columns) > .wp-block-kadence-column.kadence-column435_072fba-78 > .kt-inside-inner-col{flex-direction:column;justify-content:center;}}<\/style>\n<div class=\"wp-block-kadence-column kadence-column435_072fba-78\"><div class=\"kt-inside-inner-col\"><style>.kb-image435_493c4b-56 .kb-image-has-overlay:after{opacity:0.3;}<\/style>\n<figure class=\"wp-block-kadence-image kb-image435_493c4b-56\"><img loading=\"lazy\" decoding=\"async\" width=\"1860\" height=\"1526\" src=\"https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/03\/Filament-tracing-for-Imaris-page.png\" alt=\"Zebrafish primary motor neurons\" class=\"kb-img wp-image-968\" srcset=\"https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/03\/Filament-tracing-for-Imaris-page.png 1860w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/03\/Filament-tracing-for-Imaris-page-300x246.png 300w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/03\/Filament-tracing-for-Imaris-page-1024x840.png 1024w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/03\/Filament-tracing-for-Imaris-page-768x630.png 768w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/03\/Filament-tracing-for-Imaris-page-1536x1260.png 1536w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/03\/Filament-tracing-for-Imaris-page-105x86.png 105w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/03\/Filament-tracing-for-Imaris-page-317x260.png 317w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/03\/Filament-tracing-for-Imaris-page-423x347.png 423w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/03\/Filament-tracing-for-Imaris-page-634x520.png 634w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/03\/Filament-tracing-for-Imaris-page-846x694.png 846w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/03\/Filament-tracing-for-Imaris-page-951x780.png 951w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/03\/Filament-tracing-for-Imaris-page-1268x1040.png 1268w\" sizes=\"auto, (max-width: 320px) 85vw, (max-width: 768px) 67vw, (max-width: 1024px) 62vw,1860px\" \/><\/figure>\n\n\n<style>.wp-block-kadence-advancedheading.kt-adv-heading435_f6fdf0-bd, .wp-block-kadence-advancedheading.kt-adv-heading435_f6fdf0-bd[data-kb-block=\"kb-adv-heading435_f6fdf0-bd\"]{font-size:18px;font-weight:500;font-style:normal;font-family:forma-djr-micro;}.wp-block-kadence-advancedheading.kt-adv-heading435_f6fdf0-bd mark.kt-highlight, .wp-block-kadence-advancedheading.kt-adv-heading435_f6fdf0-bd[data-kb-block=\"kb-adv-heading435_f6fdf0-bd\"] mark.kt-highlight{font-style:normal;color:#f76a0c;-webkit-box-decoration-break:clone;box-decoration-break:clone;padding-top:0px;padding-right:0px;padding-bottom:0px;padding-left:0px;}.wp-block-kadence-advancedheading.kt-adv-heading435_f6fdf0-bd img.kb-inline-image, .wp-block-kadence-advancedheading.kt-adv-heading435_f6fdf0-bd[data-kb-block=\"kb-adv-heading435_f6fdf0-bd\"] img.kb-inline-image{width:150px;vertical-align:baseline;}<\/style>\n<p class=\"kt-adv-heading435_f6fdf0-bd wp-block-kadence-advancedheading has-white-color has-text-color\" data-kb-block=\"kb-adv-heading435_f6fdf0-bd\">Filament tracing: Zebrafish primary&nbsp;motor neurons can be visualized and analyzed using the Filament Tool, which provides both manual and automatic tracing options. With this tool, you can measure each neuron&#8217;s length, count, branch numbers and more.<\/p>\n\n\n\n<figure class=\"wp-block-image size-large\"><img loading=\"lazy\" decoding=\"async\" width=\"1024\" height=\"440\" src=\"https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/04\/Spot-detection-for-Imaris-page-small-1024x440.png\" alt=\"\" class=\"wp-image-1000\" srcset=\"https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/04\/Spot-detection-for-Imaris-page-small-1024x440.png 1024w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/04\/Spot-detection-for-Imaris-page-small-300x129.png 300w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/04\/Spot-detection-for-Imaris-page-small-768x330.png 768w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/04\/Spot-detection-for-Imaris-page-small-1536x660.png 1536w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/04\/Spot-detection-for-Imaris-page-small-2048x880.png 2048w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/04\/Spot-detection-for-Imaris-page-small-105x45.png 105w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/04\/Spot-detection-for-Imaris-page-small-317x136.png 317w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/04\/Spot-detection-for-Imaris-page-small-423x182.png 423w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/04\/Spot-detection-for-Imaris-page-small-634x272.png 634w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/04\/Spot-detection-for-Imaris-page-small-846x363.png 846w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/04\/Spot-detection-for-Imaris-page-small-951x409.png 951w, https:\/\/umaine.edu\/cobre\/wp-content\/uploads\/sites\/681\/2025\/04\/Spot-detection-for-Imaris-page-small-1268x545.png 1268w\" sizes=\"auto, (max-width: 320px) 85vw, (max-width: 768px) 67vw, (max-width: 1024px) 62vw,1024px\" \/><\/figure>\n\n\n<style>.wp-block-kadence-advancedheading.kt-adv-heading435_fd7946-2a, .wp-block-kadence-advancedheading.kt-adv-heading435_fd7946-2a[data-kb-block=\"kb-adv-heading435_fd7946-2a\"]{font-size:18px;font-weight:500;font-style:normal;font-family:forma-djr-micro;}.wp-block-kadence-advancedheading.kt-adv-heading435_fd7946-2a mark.kt-highlight, .wp-block-kadence-advancedheading.kt-adv-heading435_fd7946-2a[data-kb-block=\"kb-adv-heading435_fd7946-2a\"] mark.kt-highlight{font-style:normal;color:#f76a0c;-webkit-box-decoration-break:clone;box-decoration-break:clone;padding-top:0px;padding-right:0px;padding-bottom:0px;padding-left:0px;}.wp-block-kadence-advancedheading.kt-adv-heading435_fd7946-2a img.kb-inline-image, .wp-block-kadence-advancedheading.kt-adv-heading435_fd7946-2a[data-kb-block=\"kb-adv-heading435_fd7946-2a\"] img.kb-inline-image{width:150px;vertical-align:baseline;}<\/style>\n<p class=\"kt-adv-heading435_fd7946-2a wp-block-kadence-advancedheading has-white-color has-text-color\" data-kb-block=\"kb-adv-heading435_fd7946-2a\">Spots: The nuclei are annotated&nbsp;and quantified using the Spots tool in Imaris. This tool automatically, also has the manual features, detects discrete&nbsp;points, enabling researchers to identify and count objects that are otherwise difficult to quantify.&nbsp; &nbsp;<\/p>\n\n\n<style>.wp-block-kadence-advancedheading.kt-adv-heading435_73760c-3c, .wp-block-kadence-advancedheading.kt-adv-heading435_73760c-3c[data-kb-block=\"kb-adv-heading435_73760c-3c\"]{font-size:18px;font-weight:500;font-style:normal;font-family:forma-djr-micro;}.wp-block-kadence-advancedheading.kt-adv-heading435_73760c-3c mark.kt-highlight, .wp-block-kadence-advancedheading.kt-adv-heading435_73760c-3c[data-kb-block=\"kb-adv-heading435_73760c-3c\"] mark.kt-highlight{font-style:normal;color:#f76a0c;-webkit-box-decoration-break:clone;box-decoration-break:clone;padding-top:0px;padding-right:0px;padding-bottom:0px;padding-left:0px;}.wp-block-kadence-advancedheading.kt-adv-heading435_73760c-3c img.kb-inline-image, .wp-block-kadence-advancedheading.kt-adv-heading435_73760c-3c[data-kb-block=\"kb-adv-heading435_73760c-3c\"] img.kb-inline-image{width:150px;vertical-align:baseline;}<\/style>\n<p class=\"kt-adv-heading435_73760c-3c wp-block-kadence-advancedheading has-white-color has-text-color\" data-kb-block=\"kb-adv-heading435_73760c-3c\">&nbsp;<\/p>\n<\/div><\/div>\n\n\n<style>.kadence-column435_261d25-80 > .kt-inside-inner-col,.kadence-column435_261d25-80 > .kt-inside-inner-col:before{border-top-left-radius:0px;border-top-right-radius:0px;border-bottom-right-radius:0px;border-bottom-left-radius:0px;}.kadence-column435_261d25-80 > .kt-inside-inner-col{column-gap:var(--global-kb-gap-sm, 1rem);}.kadence-column435_261d25-80 > .kt-inside-inner-col{flex-direction:column;}.kadence-column435_261d25-80 > .kt-inside-inner-col > .aligncenter{width:100%;}.kadence-column435_261d25-80 > .kt-inside-inner-col:before{opacity:0.3;}.kadence-column435_261d25-80{position:relative;}@media all and (max-width: 1024px){.kadence-column435_261d25-80 > .kt-inside-inner-col{flex-direction:column;justify-content:center;}}@media all and (max-width: 767px){.kadence-column435_261d25-80 > .kt-inside-inner-col{flex-direction:column;justify-content:center;}}<\/style>\n<div class=\"wp-block-kadence-column kadence-column435_261d25-80\"><div class=\"kt-inside-inner-col\">\n<div style=\"padding:75% 0 0 0;position:relative;\"><iframe src=\"https:\/\/player.vimeo.com\/video\/1074767286?badge=0&amp;autopause=0&amp;player_id=0&amp;app_id=58479\" frameborder=\"0\" allow=\"autoplay; fullscreen; picture-in-picture; clipboard-write; encrypted-media\" style=\"position:absolute;top:0;left:0;width:100%;height:100%;\" title=\"Muscle Fiber Segmentation\"><\/iframe><\/div><script src=\"https:\/\/player.vimeo.com\/api\/player.js\"><\/script>\n\n\n<style>.wp-block-kadence-advancedheading.kt-adv-heading435_baabca-47, .wp-block-kadence-advancedheading.kt-adv-heading435_baabca-47[data-kb-block=\"kb-adv-heading435_baabca-47\"]{font-size:18px;font-weight:500;font-style:normal;font-family:forma-djr-micro;}.wp-block-kadence-advancedheading.kt-adv-heading435_baabca-47 mark.kt-highlight, .wp-block-kadence-advancedheading.kt-adv-heading435_baabca-47[data-kb-block=\"kb-adv-heading435_baabca-47\"] mark.kt-highlight{font-style:normal;color:#f76a0c;-webkit-box-decoration-break:clone;box-decoration-break:clone;padding-top:0px;padding-right:0px;padding-bottom:0px;padding-left:0px;}.wp-block-kadence-advancedheading.kt-adv-heading435_baabca-47 img.kb-inline-image, .wp-block-kadence-advancedheading.kt-adv-heading435_baabca-47[data-kb-block=\"kb-adv-heading435_baabca-47\"] img.kb-inline-image{width:150px;vertical-align:baseline;}<\/style>\n<p class=\"kt-adv-heading435_baabca-47 wp-block-kadence-advancedheading has-white-color has-text-color\" data-kb-block=\"kb-adv-heading435_baabca-47\">Muscle fiber segmentation: Zebrafish muscle fibers can be annotated using Deep learning features within Surface Tool in Imaris. This tool supports 3D segmentation, analysis, and surface visualization, which helps researchers compare and measure muscle fiber structures.&nbsp;<\/p>\n<\/div><\/div>\n\n\n<style>.kadence-column435_f48334-9a > .kt-inside-inner-col,.kadence-column435_f48334-9a > .kt-inside-inner-col:before{border-top-left-radius:0px;border-top-right-radius:0px;border-bottom-right-radius:0px;border-bottom-left-radius:0px;}.kadence-column435_f48334-9a > .kt-inside-inner-col{column-gap:var(--global-kb-gap-sm, 1rem);}.kadence-column435_f48334-9a > .kt-inside-inner-col{flex-direction:column;}.kadence-column435_f48334-9a > .kt-inside-inner-col > .aligncenter{width:100%;}.kadence-column435_f48334-9a > .kt-inside-inner-col:before{opacity:0.3;}.kadence-column435_f48334-9a{position:relative;}@media all and (max-width: 1024px){.kadence-column435_f48334-9a > .kt-inside-inner-col{flex-direction:column;justify-content:center;}}@media all and (max-width: 767px){.kadence-column435_f48334-9a > .kt-inside-inner-col{flex-direction:column;justify-content:center;}}<\/style>\n<div class=\"wp-block-kadence-column kadence-column435_f48334-9a\"><div class=\"kt-inside-inner-col\">\n<div style=\"padding:62.5% 0 0 0;position:relative;\"><iframe src=\"https:\/\/player.vimeo.com\/video\/1074768361?badge=0&amp;autopause=0&amp;player_id=0&amp;app_id=58479\" frameborder=\"0\" allow=\"autoplay; fullscreen; picture-in-picture; clipboard-write; encrypted-media\" style=\"position:absolute;top:0;left:0;width:100%;height:100%;\" title=\"Surface Tracking\"><\/iframe><\/div><script src=\"https:\/\/player.vimeo.com\/api\/player.js\"><\/script>\n\n\n<style>.wp-block-kadence-advancedheading.kt-adv-heading435_dfba4e-7a, .wp-block-kadence-advancedheading.kt-adv-heading435_dfba4e-7a[data-kb-block=\"kb-adv-heading435_dfba4e-7a\"]{font-size:18px;font-weight:500;font-style:normal;font-family:forma-djr-micro;}.wp-block-kadence-advancedheading.kt-adv-heading435_dfba4e-7a mark.kt-highlight, .wp-block-kadence-advancedheading.kt-adv-heading435_dfba4e-7a[data-kb-block=\"kb-adv-heading435_dfba4e-7a\"] mark.kt-highlight{font-style:normal;color:#f76a0c;-webkit-box-decoration-break:clone;box-decoration-break:clone;padding-top:0px;padding-right:0px;padding-bottom:0px;padding-left:0px;}.wp-block-kadence-advancedheading.kt-adv-heading435_dfba4e-7a img.kb-inline-image, .wp-block-kadence-advancedheading.kt-adv-heading435_dfba4e-7a[data-kb-block=\"kb-adv-heading435_dfba4e-7a\"] img.kb-inline-image{width:150px;vertical-align:baseline;}<\/style>\n<p class=\"kt-adv-heading435_dfba4e-7a wp-block-kadence-advancedheading has-white-color has-text-color\" data-kb-block=\"kb-adv-heading435_dfba4e-7a\">Tracking macrophages: The Surface tool enables tracking of objects across time-lapse images, helping researchers&nbsp;follow changes in position, shape and movement over time. Once the objects are tracked, users can analyze their properties such as velocity, displacement, volume, and surface area to gain deeper insights into dynamic behaviors or morphological&nbsp;changes.&nbsp;&nbsp;<\/p>\n<\/div><\/div>\n\n<\/div><\/div>\n\n<style>.wp-block-kadence-spacer.kt-block-spacer-435_88f469-4a .kt-block-spacer{height:60px;}.wp-block-kadence-spacer.kt-block-spacer-435_88f469-4a .kt-divider{border-top-width:1px;height:1px;border-top-color:#eee;width:80%;border-top-style:solid;}<\/style>\n<div class=\"wp-block-kadence-spacer aligncenter kt-block-spacer-435_88f469-4a\"><div class=\"kt-block-spacer kt-block-spacer-halign-center\"><\/div><\/div>\n","protected":false},"excerpt":{"rendered":"<p>Image Analysis \u2013 Software and Analysis Services We are a full-service facility offering access to multiple image analysis software packages and providing expert consulting for analysis projects. Our offerings include ImageJ for straightforward analysis as well as the Imaris for Core Facilities Package for high-content analysis and image processing. ImageJ is a versatile platform developed [&hellip;]<\/p>\n","protected":false},"author":1801,"featured_media":0,"parent":57,"menu_order":-1,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_kad_blocks_custom_css":"","_kad_blocks_head_custom_js":"","_kad_blocks_body_custom_js":"","_kad_blocks_footer_custom_js":"","_monsterinsights_skip_tracking":false,"footnotes":""},"class_list":["post-435","page","type-page","status-publish","hentry"],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v28.2 - https:\/\/yoast.com\/product\/yoast-seo-wordpress\/ -->\n<title>Image Analysis \u2013 Software and Analysis Services - Center for Biomedical Research Excellence (COBRE) - University of Maine<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/umaine.edu\/cobre\/microscopy-and-image-analysis-core\/image-analysis-software-and-analysis-services\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Image Analysis \u2013 Software and Analysis Services - Center for Biomedical Research Excellence (COBRE) - University of Maine\" \/>\n<meta property=\"og:description\" content=\"Image Analysis \u2013 Software and Analysis Services We are a full-service facility offering access to multiple image analysis software packages and providing expert consulting for analysis projects. Our offerings include ImageJ for straightforward analysis as well as the Imaris for Core Facilities Package for high-content analysis and image processing. 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