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[{"vid":"115","uid":"1","title":"AnnoteImage","log":"","status":"1","comment":"2","promote":"1","sticky":"0","vuuid":"d8212d12-884d-4e1d-844d-08571355aa9c","nid":"65","type":"project","language":"und","created":"1385001095","changed":"1499119345","tnid":"0","translate":"0","uuid":"8e75d530-d94d-4438-968d-8c389e93ef35","revision_timestamp":"1499119345","revision_uid":"1","body":{"und":[{"value":"\u003Ch2\u003EImage Markup Language (IML) tool\u003C\/h2\u003E\r\n\r\n\r\n\u003Ch3\u003EOverview\u003C\/h3\u003E\r\n\u003Cp\u003EAnnoteImage is a Java tool for creating IML, an XML format for storing textual annotations to images. The annotation model is one of outlined regions, identified by labels, and colored \u0027strings\u0027 and \u0027pins\u0027. The IML schema also allows for some limited metadata about the annotations. IML was based on an existing lisp-like format used in our \u003Ca href=\u0022http:\/\/da.biostr.washington.edu\/da.html\u0022\u003E web-based interactive anatomy atlases\u003C\/a\u003E. \u003Cp\u003E A brief \u003Ca href=\u0022walkthrough.html\u0022\u003EAnnoteImage tutorial\u003C\/a\u003E is available for use with the online \u003Ca href=\u0022http:\/\/fma.biostr.washington.edu\/annoteimage\/AnnoteImage.jnlp\u0022\u003EAnnoteImage WebStart\u003C\/a\u003E demo (requires \u003Ca href=\u0022http:\/\/www.java.com\u0022\u003EJava\u003C\/a\u003E), or a ZIP file of AnnoteImage is available from the \u003Ca href=\u0022http:\/\/sig.biostr.washington.edu\/products\/downloads\/\u0022\u003ESIG downloads page\u003C\/a\u003E. \u003C\/p\u003E\r\n\r\n\r\n\u003Ch3\u003EOntology Term Integration\u003C\/h3\u003E\r\n\u003Cp\u003E\r\nStandardized terminology (\u0022Wall of Abdomen\u0022 versus \u0022Abdominal wall\u0022) has been \r\na challenge for anatomical image annotation. AnnoteImage includes integrated\r\nsupport to search or browse for official class names from the \u003Ca\r\nhref=\u0022http:\/\/fma.biostr.washington.edu\u0022\u003EFMA Ontology\u003C\/a\u003E using\r\n\u003Ca href=\u0022http:\/\/protege.stanford.edu\u0022\u003EProt\u0026eacute;g\u0026eacute;\u003C\/a\u003E.\r\nAnnoteImage with integrated support for the FMA is available from the \u003Ca\r\nhref=\u0022http:\/\/sig.biostr.washington.edu\/products\/downloads\/\u0022\u003ESIG\r\ndownloads page\u003C\/a\u003E.\r\n\u003Cp\u003E\r\nHowever, this requires a local copy of the FMA, so recently as part of our\r\n\u003Ca href=\u0022http:\/\/sig.biostr.washington.edu\/projects\/ontviews\/\u0022\u003EOntology Views \r\nProject\u003C\/a\u003E we have developed an experimental version of AnnoteImage that \r\ninstead queries a Semantic Web Service without the need for end users to \r\nwrite queries. This is also simpler for end users who do not need to worry\r\nabout installing or configuring the FMA. If you have\r\n\u003Ca href=\u0022http:\/\/www.java.com\u0022\u003EJava\u003C\/a\u003E installed, you can run \r\n\u003Ca href=\u0022http:\/\/fma.biostr.washington.edu\/annoteimage\/AnnoteImage.jnlp\u0022\u003EAnnoteImage WebStart\u003C\/a\u003E\r\nnow.\r\n\r\n\u003Ch3\u003EPublications\u003C\/h3\u003E\r\n\r\n\u003Ca href=\u0022http:\/\/sigpubs.biostr.washington.edu\/view\/projects\/AnnoteImage.html\u0022\u003ESIG Publications on AnnoteImage\u003C\/a\u003E\r\n\r\n\r\n\u003Chr\u003E","summary":"","format":"full_html","safe_value":"\u003Ch2\u003EImage Markup Language (IML) tool\u003C\/h2\u003E\n\u003Ch3\u003EOverview\u003C\/h3\u003E\n\u003Cp\u003EAnnoteImage is a Java tool for creating IML, an XML format for storing textual annotations to images. The annotation model is one of outlined regions, identified by labels, and colored \u0027strings\u0027 and \u0027pins\u0027. The IML schema also allows for some limited metadata about the annotations. IML was based on an existing lisp-like format used in our \u003Ca href=\u0022http:\/\/da.biostr.washington.edu\/da.html\u0022\u003E web-based interactive anatomy atlases\u003C\/a\u003E.\n\u003C\/p\u003E\u003Cp\u003E A brief \u003Ca href=\u0022http:\/\/si.washington.edu\/walkthrough.html\u0022\u003EAnnoteImage tutorial\u003C\/a\u003E is available for use with the online \u003Ca href=\u0022http:\/\/fma.biostr.washington.edu\/annoteimage\/AnnoteImage.jnlp\u0022\u003EAnnoteImage WebStart\u003C\/a\u003E demo (requires \u003Ca href=\u0022http:\/\/www.java.com\u0022\u003EJava\u003C\/a\u003E), or a ZIP file of AnnoteImage is available from the \u003Ca href=\u0022http:\/\/sig.biostr.washington.edu\/products\/downloads\/\u0022\u003ESIG downloads page\u003C\/a\u003E. \u003C\/p\u003E\n\u003Ch3\u003EOntology Term Integration\u003C\/h3\u003E\n\u003Cp\u003E\nStandardized terminology (\u0022Wall of Abdomen\u0022 versus \u0022Abdominal wall\u0022) has been\u003Cbr \/\u003E\na challenge for anatomical image annotation. AnnoteImage includes integrated\u003Cbr \/\u003E\nsupport to search or browse for official class names from the \u003Ca\u003E\u003C\/a\u003E\nhref=\u0022http:\/\/fma.biostr.washington.edu\u0022\u0026gt;FMA Ontology using\u003Cbr \/\u003E\n\u003Ca href=\u0022http:\/\/protege.stanford.edu\u0022\u003EProt\u00e9g\u00e9\u003C\/a\u003E.\u003Cbr \/\u003E\nAnnoteImage with integrated support for the FMA is available from the \u003Ca\u003E\u003C\/a\u003E\nhref=\u0022http:\/\/sig.biostr.washington.edu\/products\/downloads\/\u0022\u0026gt;SIG\u003Cbr \/\u003E\ndownloads page.\u003C\/p\u003E\n\u003Cp\u003E\nHowever, this requires a local copy of the FMA, so recently as part of our\u003Cbr \/\u003E\n\u003Ca href=\u0022http:\/\/sig.biostr.washington.edu\/projects\/ontviews\/\u0022\u003EOntology Views\u003Cbr \/\u003E\nProject\u003C\/a\u003E we have developed an experimental version of AnnoteImage that\u003Cbr \/\u003E\ninstead queries a Semantic Web Service without the need for end users to\u003Cbr \/\u003E\nwrite queries. This is also simpler for end users who do not need to worry\u003Cbr \/\u003E\nabout installing or configuring the FMA. If you have\u003Cbr \/\u003E\n\u003Ca href=\u0022http:\/\/www.java.com\u0022\u003EJava\u003C\/a\u003E installed, you can run\u003Cbr \/\u003E\n\u003Ca href=\u0022http:\/\/fma.biostr.washington.edu\/annoteimage\/AnnoteImage.jnlp\u0022\u003EAnnoteImage WebStart\u003C\/a\u003E\u003Cbr \/\u003E\nnow.\u003C\/p\u003E\n\u003Ch3\u003EPublications\u003C\/h3\u003E\n\u003Cp\u003E\u003Ca href=\u0022http:\/\/sigpubs.biostr.washington.edu\/view\/projects\/AnnoteImage.html\u0022\u003ESIG Publications on AnnoteImage\u003C\/a\u003E\u003C\/p\u003E\n\u003Chr \/\u003E\n","safe_summary":""}]},"field_short_description":{"und":[{"value":"Image Markup","format":null,"safe_value":"Image Markup"}]},"field_long_description":[],"field_project_status":{"und":[{"tid":"11"}]},"field_project_lead":{"und":[{"target_id":"5"}]},"field_project_members":[],"field_informatics_research_areas":{"und":[{"tid":"16"},{"tid":"14"}]},"field_biomedical_domains":{"und":[{"tid":"17"}]},"field_project_image":{"und":[{"fid":"23","uid":"1","filename":"AnnoteImage-Screenshot.jpg","uri":"public:\/\/AnnoteImage-Screenshot.jpg","filemime":"image\/jpeg","filesize":"396713","status":"1","timestamp":"1420324014","uuid":"98b6017b-6966-4410-800f-3d564e613199","alt":"","title":"","width":"913","height":"637"}]},"field_related_projects":{"und":[{"target_id":"76"}]},"field_funding_sources":{"und":[{"target_id":"113"}]},"field_service_or_application":{"und":[{"target_id":"167"}]},"field_project_tag":{"und":[{"tid":"85"}]},"field_publications":[],"path":{"pid":"74","source":"node\/65","alias":"content\/annoteimage","language":"und"},"cid":"0","last_comment_timestamp":"1385001095","last_comment_name":null,"last_comment_uid":"1","comment_count":"0","name":"drupal","picture":"0","data":"b:0;","menu":null,"node_export_drupal_version":"7","#node_export_object":"1"}]
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