{"id":596,"date":"2025-12-17T23:00:23","date_gmt":"2025-12-17T23:00:23","guid":{"rendered":"https:\/\/depts.washington.edu\/nesacbio\/wordpress\/?page_id=596"},"modified":"2025-12-17T23:21:01","modified_gmt":"2025-12-17T23:21:01","slug":"nbtoolbox-imagegui-information","status":"publish","type":"page","link":"https:\/\/depts.washington.edu\/nesacbio\/nbtoolbox-imagegui-information\/","title":{"rendered":"NBToolbox Imagegui Information"},"content":{"rendered":"\n<p><strong>Imagegui features:<\/strong><\/p>\n\n\n\n<ul class=\"wp-block-list\">\n<li>Import .bif or .bif6 image files (Iontof)<\/li>\n\n\n\n<li>Import data from workspace<\/li>\n\n\n\n<li>Normalize image data<\/li>\n\n\n\n<li>Crop image<\/li>\n\n\n\n<li>Filter\/process image (down bin x2, boxcar, wavelet (with Matlab wavelet toolbox), up sample x2)<\/li>\n\n\n\n<li>PCA<\/li>\n\n\n\n<li>MAF<\/li>\n\n\n\n<li>Plot image data<\/li>\n\n\n\n<li>Create and plot a ratio of peaks for every pixel in an image<\/li>\n\n\n\n<li>Plot PCA\/MAF scores<\/li>\n\n\n\n<li>Plot PCA\/MAF loadings<\/li>\n\n\n\n<li>RGB Image overlays<\/li>\n\n\n\n<li>Scalebar creation and image labeling<\/li>\n\n\n\n<li>Import imzML (requires&nbsp;MSiReader &#8211; <a href=\"https:\/\/msireader.com\/\">Access the MSiReader here<\/a>)<\/li>\n\n\n\n<li>Plot images using a micron scale<\/li>\n\n\n\n<li>Split positive and negative scores and loadings for easier interpretation<\/li>\n\n\n\n<li>New colormaps added for producing better contrast in scores plots<\/li>\n\n\n\n<li>Interface with&nbsp;MCR-ALS&nbsp;by Tauler and de Juan (<a href=\"http:\/\/www.mcrals.info\/\">Access the MCR-ALS software here<\/a>)<\/li>\n\n\n\n<li>Image aligner<\/li>\n\n\n\n<li>Image dicer &#8211; to dice stage raster or other images into smaller images<\/li>\n\n\n\n<li>ROI extractor<\/li>\n\n\n\n<li>Pseudo spectra plotter &#8211; to plot spectra from imported image data<\/li>\n<\/ul>\n\n\n\n<figure class=\"wp-block-image size-large\"><img loading=\"lazy\" decoding=\"async\" width=\"1024\" height=\"934\" src=\"https:\/\/depts.washington.edu\/nesacbio\/wordpress\/wp-content\/uploads\/2025\/12\/ImageGuiScreen01-1024x934.jpg\" alt=\"\" class=\"wp-image-597\" srcset=\"https:\/\/depts.washington.edu\/nesacbio\/wordpress\/wp-content\/uploads\/2025\/12\/ImageGuiScreen01-1024x934.jpg 1024w, https:\/\/depts.washington.edu\/nesacbio\/wordpress\/wp-content\/uploads\/2025\/12\/ImageGuiScreen01-300x274.jpg 300w, https:\/\/depts.washington.edu\/nesacbio\/wordpress\/wp-content\/uploads\/2025\/12\/ImageGuiScreen01-768x701.jpg 768w, https:\/\/depts.washington.edu\/nesacbio\/wordpress\/wp-content\/uploads\/2025\/12\/ImageGuiScreen01.jpg 1036w\" sizes=\"auto, (max-width: 1024px) 100vw, 1024px\" \/><figcaption class=\"wp-element-caption\">Example screenshot of the Imagegui showing the PCA tools interface.<\/figcaption><\/figure>\n\n\n\n<p><a href=\"https:\/\/depts.washington.edu\/nesacbio\/wordpress\/imagegui-tutorial-page\/\">Click this link for tutorials on how to use the Imagegui<\/a><\/p>\n\n\n\n<p><a href=\"https:\/\/depts.washington.edu\/nesacbio\/wordpress\/nbtoolbox-information-and-download-request\/\">Click this link to access the form to request a copy of the NBToolbox<\/a><\/p>\n\n\n\n<p><\/p>\n","protected":false},"excerpt":{"rendered":"<p>Imagegui features: Click this link for tutorials on how to use the Imagegui Click this link to access the form to request a copy of the NBToolbox<\/p>\n","protected":false},"author":1,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-596","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/depts.washington.edu\/nesacbio\/wp-json\/wp\/v2\/pages\/596","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/depts.washington.edu\/nesacbio\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/depts.washington.edu\/nesacbio\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/depts.washington.edu\/nesacbio\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/depts.washington.edu\/nesacbio\/wp-json\/wp\/v2\/comments?post=596"}],"version-history":[{"count":4,"href":"https:\/\/depts.washington.edu\/nesacbio\/wp-json\/wp\/v2\/pages\/596\/revisions"}],"predecessor-version":[{"id":639,"href":"https:\/\/depts.washington.edu\/nesacbio\/wp-json\/wp\/v2\/pages\/596\/revisions\/639"}],"wp:attachment":[{"href":"https:\/\/depts.washington.edu\/nesacbio\/wp-json\/wp\/v2\/media?parent=596"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}