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‎.nojekyll

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‎adding_features.html

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@@ -326,7 +326,7 @@ <h2 data-number="8.1" class="anchored" data-anchor-id="adding-specific-demograph
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<div class="cell-output cell-output-stdout">
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<pre><code>Rows: ??
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Columns: 18
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Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpAZLd3s\file59e02feb5ed8.duckdb]
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Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\Rtmps5Hb1b\file398c1b3a40c.duckdb]
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$ condition_occurrence_id &lt;int&gt; 1, 3, 8, 9, 12, 18, 19, 20, 21, 23, 24, …
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$ person_id &lt;int&gt; 2, 7, 16, 16, 25, 42, 42, 42, 44, 47, 47…
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$ condition_concept_id &lt;int&gt; 381316, 381316, 381316, 313217, 381316, …
@@ -358,7 +358,7 @@ <h2 data-number="8.1" class="anchored" data-anchor-id="adding-specific-demograph
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<pre><code>&lt;SQL&gt;
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SELECT
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condition_occurrence_id,
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og_002_1735312355.person_id AS person_id,
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og_002_1735312685.person_id AS person_id,
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condition_concept_id,
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condition_start_date,
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condition_start_datetime,
@@ -375,7 +375,7 @@ <h2 data-number="8.1" class="anchored" data-anchor-id="adding-specific-demograph
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condition_status_source_value,
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age,
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RHS.sex AS sex
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FROM og_002_1735312355
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FROM og_002_1735312685
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LEFT JOIN (
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SELECT
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person_id,
@@ -393,13 +393,13 @@ <h2 data-number="8.1" class="anchored" data-anchor-id="adding-specific-demograph
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day_of_birth
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FROM (
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SELECT DISTINCT person_id
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FROM og_002_1735312355
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FROM og_002_1735312685
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) LHS
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INNER JOIN main.person
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ON (LHS.person_id = person.person_id)
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) q01
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) RHS
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ON (og_002_1735312355.person_id = RHS.person_id)</code></pre>
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ON (og_002_1735312685.person_id = RHS.person_id)</code></pre>
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</div>
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</div>
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<p>We now have two variables added containing values for age and sex.</p>
@@ -409,7 +409,7 @@ <h2 data-number="8.1" class="anchored" data-anchor-id="adding-specific-demograph
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<div class="cell-output cell-output-stdout">
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<pre><code>Rows: ??
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Columns: 18
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Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpAZLd3s\file59e02feb5ed8.duckdb]
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Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\Rtmps5Hb1b\file398c1b3a40c.duckdb]
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$ condition_occurrence_id &lt;int&gt; 1, 3, 8, 9, 12, 18, 19, 20, 21, 23, 24, …
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$ person_id &lt;int&gt; 2, 7, 16, 16, 25, 42, 42, 42, 44, 47, 47…
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$ condition_concept_id &lt;int&gt; 381316, 381316, 381316, 313217, 381316, …
@@ -473,7 +473,7 @@ <h2 data-number="8.2" class="anchored" data-anchor-id="adding-multiple-demograph
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<div class="cell-output cell-output-stdout">
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<pre><code>Rows: ??
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Columns: 27
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Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpAZLd3s\file59e02feb5ed8.duckdb]
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Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\Rtmps5Hb1b\file398c1b3a40c.duckdb]
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$ drug_exposure_id &lt;int&gt; 245761, 245762, 245763, 245765, 245766, 2…
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$ person_id &lt;int&gt; 7764, 7764, 7764, 7764, 7764, 7764, 7764,…
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$ drug_concept_id &lt;int&gt; 40213227, 40213201, 40213198, 40213154, 4…
@@ -515,8 +515,8 @@ <h2 data-number="8.2" class="anchored" data-anchor-id="adding-multiple-demograph
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<pre><code># A tibble: 2 × 4
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sex mean_age mean_prior_observation mean_future_observation
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&lt;chr&gt; &lt;dbl&gt; &lt;dbl&gt; &lt;dbl&gt;
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1 Male 43.0 2455. 1768.
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2 Female 39.4 2096. 1661.</code></pre>
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1 Female 39.4 2096. 1661.
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2 Male 43.0 2455. 1768.</code></pre>
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</div>
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</div>
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<div class="callout callout-style-default callout-tip callout-titled">
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<span id="cb18-4"><a href="#cb18-4" aria-hidden="true" tabindex="-1"></a> dplyr<span class="sc">::</span><span class="fu">show_query</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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<div class="cell-output cell-output-stdout">
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<pre><code>&lt;SQL&gt;
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SELECT og_004_1735312358.*
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FROM og_004_1735312358
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SELECT og_004_1735312686.*
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FROM og_004_1735312686
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WHERE (sex = 'Male')</code></pre>
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</div>
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</div>
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<div class="cell-output cell-output-stdout">
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<pre><code>Rows: ??
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Columns: 20
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Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpAZLd3s\file59e02feb5ed8.duckdb]
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Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\Rtmps5Hb1b\file398c1b3a40c.duckdb]
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$ condition_occurrence_id &lt;int&gt; 1, 3, 8, 9, 12, 18, 19, 20, 21, 23, 24, …
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$ person_id &lt;int&gt; 2, 7, 16, 16, 25, 42, 42, 42, 44, 47, 47…
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$ condition_concept_id &lt;int&gt; 381316, 381316, 381316, 313217, 381316, …
@@ -677,7 +677,7 @@ <h2 data-number="8.4" class="anchored" data-anchor-id="adding-custom-variables">
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<div class="cell-output cell-output-stdout">
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<pre><code>Rows: ??
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Columns: 6
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Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpAZLd3s\file59e02feb5ed8.duckdb]
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Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\Rtmps5Hb1b\file398c1b3a40c.duckdb]
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$ observation_period_id &lt;int&gt; 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 1…
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$ person_id &lt;int&gt; 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 1…
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$ observation_period_start_date &lt;date&gt; 2014-05-09, 1977-04-11, 2014-04-19, 201…
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<pre><code>Rows: ??
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Columns: 2
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Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpAZLd3s\file59e02feb5ed8.duckdb]
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Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\Rtmps5Hb1b\file398c1b3a40c.duckdb]
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$ person_id &lt;int&gt; 2, 7, 16, 18, 25, 36, 42, 44, 47, 51, 52,…
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$ condition_occurrence_records &lt;dbl&gt; 1, 1, 2, 2, 1, 4, 3, 2, 5, 1, 3, 2, 1, 4,…</code></pre>
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</div>
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FROM main.person
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LEFT JOIN (
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SELECT person_id, COUNT(*) AS condition_occurrence_records
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FROM og_002_1735312355
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FROM og_002_1735312685
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GROUP BY person_id
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) RHS
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ON (person.person_id = RHS.person_id)
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<span id="cb33-2"><a href="#cb33-2" aria-hidden="true" tabindex="-1"></a> <span class="fu">tally</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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<pre><code># Source: SQL [?? x 1]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpAZLd3s\file59e02feb5ed8.duckdb]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\Rtmps5Hb1b\file398c1b3a40c.duckdb]
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n
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&lt;dbl&gt;
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1 9967</code></pre>
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<span id="cb35-2"><a href="#cb35-2" aria-hidden="true" tabindex="-1"></a> <span class="fu">tally</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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<pre><code># Source: SQL [?? x 1]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpAZLd3s\file59e02feb5ed8.duckdb]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\Rtmps5Hb1b\file398c1b3a40c.duckdb]
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n
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&lt;dbl&gt;
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1 337509</code></pre>
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<span id="cb37-6"><a href="#cb37-6" aria-hidden="true" tabindex="-1"></a> <span class="fu">tally</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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<pre><code># Source: SQL [?? x 1]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpAZLd3s\file59e02feb5ed8.duckdb]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\Rtmps5Hb1b\file398c1b3a40c.duckdb]
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‎cdm_reference.html

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<span id="cb4-6"><a href="#cb4-6" aria-hidden="true" tabindex="-1"></a> <span class="fu">tbl</span>(<span class="st">"person"</span>)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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<pre><code># Source: table&lt;person&gt; [?? x 18]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpCMMdkc\file5330d56293e.duckdb]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpS4Da2J\file383018a93347.duckdb]
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person_id gender_concept_id year_of_birth month_of_birth day_of_birth
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<span id="cb6-2"><a href="#cb6-2" aria-hidden="true" tabindex="-1"></a> <span class="fu">tbl</span>(<span class="st">"observation_period"</span>)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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<pre><code># Source: table&lt;observation_period&gt; [?? x 5]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpCMMdkc\file5330d56293e.duckdb]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpS4Da2J\file383018a93347.duckdb]
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observation_period_id person_id observation_period_s…¹ observation_period_e…²
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&lt;int&gt; &lt;int&gt; &lt;date&gt; &lt;date&gt;
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<span id="cb8-4"><a href="#cb8-4" aria-hidden="true" tabindex="-1"></a> <span class="fu">count</span>() </span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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<pre><code># Source: SQL [?? x 2]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpCMMdkc\file5330d56293e.duckdb]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpS4Da2J\file383018a93347.duckdb]
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# Groups: year_of_birth
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year_of_birth n
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&lt;int&gt; &lt;dbl&gt;
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<div class="sourceCode cell-code" id="cb27"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb27-1"><a href="#cb27-1" aria-hidden="true" tabindex="-1"></a>cdm<span class="sc">$</span>person</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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<pre><code># Source: table&lt;main.person&gt; [?? x 18]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpCMMdkc\file5330d56293e.duckdb]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpS4Da2J\file383018a93347.duckdb]
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person_id gender_concept_id year_of_birth month_of_birth day_of_birth
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&lt;int&gt; &lt;int&gt; &lt;int&gt; &lt;int&gt; &lt;int&gt;
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<div class="sourceCode cell-code" id="cb29"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb29-1"><a href="#cb29-1" aria-hidden="true" tabindex="-1"></a>cdm[[<span class="st">"observation_period"</span>]]</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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<pre><code># Source: table&lt;main.observation_period&gt; [?? x 5]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpCMMdkc\file5330d56293e.duckdb]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpS4Da2J\file383018a93347.duckdb]
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observation_period_id person_id observation_period_s…¹ observation_period_e…²
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&lt;int&gt; &lt;int&gt; &lt;date&gt; &lt;date&gt;
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<span id="cb31-4"><a href="#cb31-4" aria-hidden="true" tabindex="-1"></a>cdm<span class="sc">$</span>cdm_source</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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<pre><code># Source: table&lt;main.cdm_source&gt; [?? x 10]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpCMMdkc\file5330d56293e.duckdb]
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# Database: DuckDB v1.1.3 [eburn@Windows 10 x64:R 4.4.0/C:\Users\eburn\AppData\Local\Temp\RtmpS4Da2J\file383018a93347.duckdb]
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cdm_source_name cdm_source_abbreviation cdm_holder source_description
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&lt;chr&gt; &lt;chr&gt; &lt;chr&gt; &lt;chr&gt;
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1 Synthea Synthea "" Synthea Synthetic Data
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<div class="cell">
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<div class="sourceCode cell-code" id="cb39"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb39-1"><a href="#cb39-1" aria-hidden="true" tabindex="-1"></a><span class="fu">attr</span>(<span class="fu">cdmSource</span>(cdm), <span class="st">"dbcon"</span>)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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<pre><code>&lt;duckdb_connection ce6e0 driver=&lt;duckdb_driver dbdir='C:\Users\eburn\AppData\Local\Temp\RtmpCMMdkc\file5330d56293e.duckdb' read_only=FALSE bigint=numeric&gt;&gt;</code></pre>
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<pre><code>&lt;duckdb_connection c67c0 driver=&lt;duckdb_driver dbdir='C:\Users\eburn\AppData\Local\Temp\RtmpS4Da2J\file383018a93347.duckdb' read_only=FALSE bigint=numeric&gt;&gt;</code></pre>
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</div>
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</div>
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</section>

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