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‎models/index.html‎

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<ul>
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<li><a href="#taxonomies" id="toc-taxonomies" class="nav-link active" data-scroll-target="#taxonomies">Taxonomies</a></li>
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<li><a href="#related-pages" id="toc-related-pages" class="nav-link" data-scroll-target="#related-pages">Related Pages</a></li>
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<div class="toc-actions"><ul><li><a href="https://github.com/isamplesorg/isamplesorg.github.io/edit/main/models/index.qmd" class="toc-action"><i class="bi bi-github"></i>Edit this page</a></li><li><a href="https://github.com/isamplesorg/isamplesorg.github.io/issues/new" class="toc-action"><i class="bi empty"></i>Report an issue</a></li></ul></div></nav>
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<p>see <a href="https://isamplesorg.github.io/metadata/">description of model</a> at https://isamplesorg.github.io/metadata/</p>
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<section id="taxonomies" class="level2">
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<h2 data-anchor-id="taxonomies">Taxonomies</h2>
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<p>See the <a href="https://isamplesorg.github.io/metadata/">iSamples Metadata Model</a> for the full schema documentation.</p>
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<div class="callout callout-style-default callout-tip callout-titled">
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<div class="callout-header d-flex align-content-center">
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<div class="callout-icon-container">
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<i class="callout-icon"></i>
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</div>
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<span class="screen-reader-only">Tip</span>Vocabulary Source of Truth
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</div>
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<p>The authoritative versions of iSamples vocabularies are maintained as RDF/SKOS files in the <a href="https://github.com/isamplesorg/">iSamples GitHub repositories</a>. Vocabulary terms are also registered with the <a href="https://vocabs.ardc.edu.au/">Australian Research Data Commons (ARDC) Research Vocabularies</a>.</p>
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<section id="taxonomies" class="level2 unnumbered">
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<h2 class="unnumbered" data-anchor-id="taxonomies">Taxonomies</h2>
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<p>One of the foundations for interoperability of iSamples material sample descriptions is the definition of vocabularies for the categorization of sample type. There are three core vocabularies for different aspects of sample type: material sample type, material type, and sampled feature type. Each vocabulary is maintained as an RDF file using the SKOS vocabulary, with hierarchical relationships using <a href="https://www.w3.org/2009/08/skos-reference/skos.html#broader"><code>SKOS:broader</code></a>. In order to be domain agnostic, these core taxonomies cover a small set of top level terms. The taxonomies may be extended as necessary to support more specialized domains by relating additional terms using <code>SKOS:broader</code> and <code>SKOS:narrower</code>.</p>
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<p>The iSamples core taxonomies are controlled vocabularies with terms related by <a href="https://www.w3.org/2009/08/skos-reference/skos.html#broader"><code>SKOS:broader</code></a> and <a href="https://www.w3.org/2009/08/skos-reference/skos.html#narrower"><code>SKOS:narrower</code></a>. In order to be domain agnostic, the core taxonomies cover a small set of top level terms. The taxonomies may be extended as necessary to support more specialized domains by relating additional terms using <code>SKOS:broader</code> and <code>SKOS:narrower</code>.</p>
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<p>The iSamples taxonomies are used to characterize three fundamental concepts pertaining to physical samples:</p>
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<ol type="1">
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<li>The “iSamples Materials vocabulary” is a taxonomy of terms used to categorize the composition of a physical sample, that is “What material is the sample composed of?”</li>
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<li>The “Sampled Feature Type Vocabulary” is a taxonomy of terms used to indicate what the sample is representative of.</li>
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<li>The “iSamples Specimen Type Vocabulary” is a taxonomy of broad categories that classify what type of spcimen the physical sample record represents.</li>
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<li>The <strong>Materials Vocabulary</strong> categorizes the composition of a physical sample (“What material is the sample composed of?”)</li>
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<li>The <strong>Sampled Feature Type Vocabulary</strong> indicates what the sample is representative of</li>
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<li>The <strong>Specimen Type Vocabulary</strong> classifies what type of specimen the physical sample record represents</li>
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<p>Three taxonomies are currently defined :</p>
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<p><a href="generated/vocabularies/material_sample_object_type.html">Material Sample (specimen) Type Vocabulary</a></p>
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<p><a href="generated/vocabularies/material_type.html">Materials Vocabulary</a></p>
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<p><a href="generated/vocabularies/sampled_feature_type.html">Sampled Feature (context) Type vocabulary</a></p>
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<div class="callout callout-style-default callout-note callout-titled">
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<div class="callout-header d-flex align-content-center collapsed" data-bs-toggle="collapse" data-bs-target=".callout-2-contents" aria-controls="callout-2" aria-expanded="false" aria-label="Toggle callout">
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<i class="callout-icon"></i>
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</div>
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<span class="screen-reader-only">Note</span>Core Vocabularies
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</div>
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<div class="callout-btn-toggle d-inline-block border-0 py-1 ps-1 pe-0 float-end"><i class="callout-toggle"></i></div>
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</div>
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<div id="callout-2" class="callout-2-contents callout-collapse collapse">
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<div class="callout-body-container callout-body">
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<ul>
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<li><a href="generated/vocabularies/material_sample_object_type.html">Material Sample (specimen) Type Vocabulary</a></li>
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<li><a href="generated/vocabularies/material_type.html">Materials Vocabulary</a></li>
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<li><a href="generated/vocabularies/sampled_feature_type.html">Sampled Feature (context) Type vocabulary</a></li>
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</ul>
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</div>
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</div>
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</div>
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</section>
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<section id="related-pages" class="level2 unnumbered">
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<h2 class="unnumbered" data-anchor-id="related-pages">Related Pages</h2>
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<ul>
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<li><a href="../design/index.html">Architecture Overview</a> — system principles and architecture</li>
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<li><a href="../design/requirements.html">Requirements</a> — 18 use cases and requirements</li>
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<li><a href="https://isamplesorg.github.io/metadata/">Metadata Model</a> — schema and data model documentation</li>
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</ul>
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<tr data-index="0" data-listing-date-sort="1775692117029" data-listing-file-modified-sort="1775692118287" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="7" data-listing-word-count-sort="1283" data-listing-title-sort="Sampled Feature Type vocabulary" data-listing-filename-sort="sampled_feature_type.qmd">
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<a href="../models/generated/vocabularies/sampled_feature_type.html" class="title listing-title">Sampled Feature Type vocabulary</a>
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<tr data-index="1" data-listing-date-sort="1775692119725" data-listing-file-modified-sort="1775692121058" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="10" data-listing-word-count-sort="1917" data-listing-title-sort="iSamples Material Sample Object Type Vocabulary" data-listing-filename-sort="material_sample_object_type.qmd">
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<a href="../models/generated/vocabularies/material_sample_object_type.html" class="title listing-title">iSamples Material Sample Object Type Vocabulary</a>
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<tr data-index="2" data-listing-date-sort="1775692114321" data-listing-file-modified-sort="1775692115632" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="10" data-listing-word-count-sort="1870" data-listing-title-sort="iSamples Materials Vocabulary" data-listing-filename-sort="material_type.qmd">
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<a href="../models/generated/vocabularies/material_type.html" class="title listing-title">iSamples Materials Vocabulary</a>
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<tr data-index="0" data-listing-date-sort="1775692154625" data-listing-file-modified-sort="1775692157196" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="19" data-listing-word-count-sort="3658" data-listing-title-sort="Biology Extension: Basic taxon classes for biological entity" data-listing-filename-sort="biology_sampledfeature_extension.md">
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<a href="../models/generated/extensions/biology_sampledfeature_extension.html" class="title listing-title">Biology Extension: Basic taxon classes for biological entity</a>
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‎models/mapping_sources.html‎

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