{"id":536,"date":"2018-04-24T00:05:24","date_gmt":"2018-04-24T00:05:24","guid":{"rendered":"https:\/\/my.dev.vanderbilt.edu\/tractem\/?page_id=536"},"modified":"2018-04-24T00:05:24","modified_gmt":"2018-04-24T00:05:24","slug":"tract-numeric-codes","status":"publish","type":"page","link":"https:\/\/my.dev.vanderbilt.edu\/tractem\/getting-started\/tract-numeric-codes\/","title":{"rendered":"Tract Numeric Codes"},"content":{"rendered":"<p>The TractEM protocol focuses on creating TRK files that represent the spatial extent of fiber bundles as a sets of points. Each bundle is represented by a separate file with the naming scheme linked to the abbreviation in the <a href=\"https:\/\/my.dev.vanderbilt.edu\/tractem\/protocol\/\">Protocols for All Tracts<\/a>. Multiple tracts may occupy a single voxel.<\/p>\n<p>At times it is necessary to create volumetric representations of the fiber tracts. When probabilistic \/ partial volume representations are used, one volume is needed for each tract and the data are stored in a 4-D volume. When deterministic \/ maximum probability representations are used, a single voxel may only contain one tract. In both cases, numeric representation of the tracts are needed. We \u00a0maintain compatibility with both the <a href=\"http:\/\/braincolor.mindboggle.info\">BrainColor<\/a>\u00a0indexing protocol (<a href=\"https:\/\/cdn-dev.vanderbilt.edu\/t2-my-dev\/wp-content\/uploads\/sites\/2810\/2018\/04\/BrainColorLUT.txt\">BrainColorLUT<\/a>) as well as with the <a href=\"https:\/\/surfer.nmr.mgh.harvard.edu\/fswiki\/FsTutorial\/AnatomicalROI\/FreeSurferColorLUT\">FreeSurfer definitions<\/a>\u00a0by starting our indexing at 1000.<\/p>\n<p><em>Once finalized the\u00a0indexing scheme will be posted\u00a0here.\u00a0<\/em><\/p>\n","protected":false},"excerpt":{"rendered":"<p>The TractEM protocol focuses on creating TRK files that represent the spatial extent of fiber bundles as a sets of points. Each bundle is represented by a separate file with the naming scheme linked to the abbreviation in the Protocols &hellip; <a href=\"https:\/\/my.dev.vanderbilt.edu\/tractem\/getting-started\/tract-numeric-codes\/\">Continue reading <span class=\"meta-nav\">&rarr;<\/span><\/a><\/p>\n","protected":false},"author":1920,"featured_media":0,"parent":446,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_monsterinsights_skip_tracking":false,"_monsterinsights_sitenote_active":false,"_monsterinsights_sitenote_note":"","_monsterinsights_sitenote_category":0,"footnotes":""},"class_list":["post-536","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/my.dev.vanderbilt.edu\/tractem\/wp-json\/wp\/v2\/pages\/536","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/my.dev.vanderbilt.edu\/tractem\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/my.dev.vanderbilt.edu\/tractem\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/my.dev.vanderbilt.edu\/tractem\/wp-json\/wp\/v2\/users\/1920"}],"replies":[{"embeddable":true,"href":"https:\/\/my.dev.vanderbilt.edu\/tractem\/wp-json\/wp\/v2\/comments?post=536"}],"version-history":[{"count":1,"href":"https:\/\/my.dev.vanderbilt.edu\/tractem\/wp-json\/wp\/v2\/pages\/536\/revisions"}],"predecessor-version":[{"id":538,"href":"https:\/\/my.dev.vanderbilt.edu\/tractem\/wp-json\/wp\/v2\/pages\/536\/revisions\/538"}],"up":[{"embeddable":true,"href":"https:\/\/my.dev.vanderbilt.edu\/tractem\/wp-json\/wp\/v2\/pages\/446"}],"wp:attachment":[{"href":"https:\/\/my.dev.vanderbilt.edu\/tractem\/wp-json\/wp\/v2\/media?parent=536"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}