updated on 2019-01-07 20:55:51

sbalci · Jan 7, 2019 · 3f1b5f8 · 3f1b5f8
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diff --git a/.DS_Store b/.DS_Store
diff --git a/.gitignore b/.gitignore
@@ -12,3 +12,4 @@ VOSviewer
 CitNetExplorer
 CiteSpaceV
 Pediatric-Surgery
+p values regular expression
diff --git a/BibliographicStudies.Rmd b/BibliographicStudies.Rmd
@@ -4,23 +4,23 @@ subtitle: "Reproducible Bibliometric Analysis of Pathology Articles Using PubMed
 author: "Serdar Balcı, MD, Pathologist"
 date: '`r format(Sys.Date())`'
 output: 
-  html_document: 
+  html_notebook: 
     code_folding: hide
-    df_print: kable
+    fig_caption: yes
     highlight: kate
-    keep_md: yes
     number_sections: yes
     theme: cerulean
     toc: yes
+    toc_depth: 5
     toc_float: yes
-  html_notebook: 
+  html_document: 
     code_folding: hide
-    fig_caption: yes
+    df_print: kable
     highlight: kate
+    keep_md: yes
     number_sections: yes
     theme: cerulean
     toc: yes
-    toc_depth: 5
     toc_float: yes
 ---
 
@@ -105,6 +105,52 @@ In this analysis we aimed to identify the common research topics Turkish patholo
 <!-- ## europepmc paketi ile endometriozis analizi -->
 
 
+
+---
+
+<!-- CiteSpaceV -->
+<!-- CitNetExplorer -->
+<!-- CodeForGitHubGist -->
+<!-- css -->
+<!-- data -->
+<!-- docs -->
+<!-- e-utilities-lecture-notes -->
+<!-- figure -->
+<!-- grid-2018-11-14 -->
+<!-- images -->
+<!-- Neurosurgery-Articles -->
+<!-- pdf -->
+<!-- Pediatric-Surgery -->
+<!-- rsconnect -->
+<!-- Videos -->
+<!-- VOSviewer -->
+
+<!-- ArticlesPerJournalsPerCountry.nb.html -->
+<!-- BibliographicStudies.html -->
+<!-- BibliographicStudies.nb.html -->
+<!-- CountryBasedComparison.nb.html -->
+<!-- endometriosis.nb.html -->
+<!-- JournalsPublishedArticlesFromTurkey.nb.html -->
+<!-- Making proper trend graphs.htm -->
+<!-- MeSH_Terms_Pathology_Articles_From_Turkey.nb.html -->
+<!-- p-values-in-Pathology-Articles.nb.html -->
+<!-- PathologyArticlesFromTurkeyComparedtoAllPublishedArticles.nb.html -->
+<!-- PubMedPackages.nb.html -->
+<!-- README.html -->
+<!-- Retrieving and Processing PubMed Records via easyPubMed (html).htm -->
+<!-- SchedulePubMedAnalysis.nb.html -->
+<!-- SchedulePubMedAnalysis2.nb.html -->
+<!-- SEERResearchPerCountries.nb.html -->
+<!-- SemanticScholar.nb.html -->
+<!-- Sources.html -->
+<!-- Sources.nb.html -->
+<!-- Untitled.nb.html -->
+
+
+
+
+
+
 ---
 
 # Sources Used For Analysis
@@ -145,3 +191,6 @@ s.setAttribute('data-timestamp', +new Date());
 <noscript>Please enable JavaScript to view the <a href="https://disqus.com/?ref_noscript">comments powered by Disqus.</a></noscript>
 
 ---
+
+
+
diff --git a/BibliographicStudies.nb.html b/BibliographicStudies.nb.html
diff --git a/SemanticScholar.Rmd b/SemanticScholar.Rmd
@@ -3,17 +3,3 @@ title: "Semantic Scholar"
 output: html_notebook
 ---
 
-This is an [R Markdown](http://rmarkdown.rstudio.com) Notebook. When you execute code within the notebook, the results appear beneath the code. 
-
-Try executing this chunk by clicking the *Run* button within the chunk or by placing your cursor inside it and pressing *Cmd+Shift+Enter*. 
-
-```{r}
-plot(cars)
-```
-
-Add a new chunk by clicking the *Insert Chunk* button on the toolbar or by pressing *Cmd+Option+I*.
-
-When you save the notebook, an HTML file containing the code and output will be saved alongside it (click the *Preview* button or press *Cmd+Shift+K* to preview the HTML file). 
-
-The preview shows you a rendered HTML copy of the contents of the editor. Consequently, unlike *Knit*, *Preview* does not run any R code chunks. Instead, the output of the chunk when it was last run in the editor is displayed.
-
diff --git a/SemanticScholar.nb.html b/SemanticScholar.nb.html
@@ -74,7 +74,7 @@
 padding: 0 4px 0 4px;
 }
 .pagedtable .even {
-background-color: #fcfcfc;
+background-color: rgba(140, 140, 140, 0.1);
 }
 .pagedtable-padding-col {
 display: none;
@@ -1626,6 +1626,9 @@
 button.code-folding-btn:focus {
   outline: none;
 }
+summary {
+  display: list-item;
+}
 </style>
 
 <style type="text/css">
@@ -1657,10 +1660,71 @@
 <div class="container-fluid main-container">
 
 <!-- tabsets -->
+
+<style type="text/css">
+.tabset-dropdown > .nav-tabs {
+  display: inline-table;
+  max-height: 500px;
+  min-height: 44px;
+  overflow-y: auto;
+  background: white;
+  border: 1px solid #ddd;
+  border-radius: 4px;
+}
+
+.tabset-dropdown > .nav-tabs > li.active:before {
+  content: "";
+  font-family: 'Glyphicons Halflings';
+  display: inline-block;
+  padding: 10px;
+  border-right: 1px solid #ddd;
+}
+
+.tabset-dropdown > .nav-tabs.nav-tabs-open > li.active:before {
+  content: "";
+  border: none;
+}
+
+.tabset-dropdown > .nav-tabs.nav-tabs-open:before {
+  content: "";
+  font-family: 'Glyphicons Halflings';
+  display: inline-block;
+  padding: 10px;
+  border-right: 1px solid #ddd;
+}
+
+.tabset-dropdown > .nav-tabs > li.active {
+  display: block;
+}
+
+.tabset-dropdown > .nav-tabs > li > a,
+.tabset-dropdown > .nav-tabs > li > a:focus,
+.tabset-dropdown > .nav-tabs > li > a:hover {
+  border: none;
+  display: inline-block;
+  border-radius: 4px;
+}
+
+.tabset-dropdown > .nav-tabs.nav-tabs-open > li {
+  display: block;
+  float: none;
+}
+
+.tabset-dropdown > .nav-tabs > li {
+  display: none;
+}
+</style>
+
 <script>
 $(document).ready(function () {
   window.buildTabsets("TOC");
 });
+
+$(document).ready(function () {
+  $('.tabset-dropdown > .nav-tabs > li').click(function () {
+    $(this).parent().toggleClass('nav-tabs-open')
+  });
+});
 </script>
 
 <!-- code folding -->
@@ -1678,7 +1742,6 @@
 
 
 
-
 <div class="fluid-row" id="header">
 
 <div class="btn-group pull-right">
@@ -1699,21 +1762,9 @@ <h1 class="title toc-ignore">Semantic Scholar</h1>
 
 
 <!-- rnb-text-begin -->
-<p>This is an <a href="http://rmarkdown.rstudio.com">R Markdown</a> Notebook. When you execute code within the notebook, the results appear beneath the code.</p>
-<p>Try executing this chunk by clicking the <em>Run</em> button within the chunk or by placing your cursor inside it and pressing <em>Cmd+Shift+Enter</em>.</p>
-<!-- rnb-text-end -->
-<!-- rnb-chunk-begin -->
-<!-- rnb-source-begin eyJkYXRhIjoiYGBgclxucGxvdChjYXJzKVxuYGBgIn0= -->
-<pre class="r"><code>plot(cars)</code></pre>
-<!-- rnb-source-end -->
-<!-- rnb-chunk-end -->
-<!-- rnb-text-begin -->
-<p>Add a new chunk by clicking the <em>Insert Chunk</em> button on the toolbar or by pressing <em>Cmd+Option+I</em>.</p>
-<p>When you save the notebook, an HTML file containing the code and output will be saved alongside it (click the <em>Preview</em> button or press <em>Cmd+Shift+K</em> to preview the HTML file).</p>
-<p>The preview shows you a rendered HTML copy of the contents of the editor. Consequently, unlike <em>Knit</em>, <em>Preview</em> does not run any R code chunks. Instead, the output of the chunk when it was last run in the editor is displayed.</p>
 <!-- rnb-text-end -->
 
-<div id="rmd-source-code">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</div>
+<div id="rmd-source-code">LS0tCnRpdGxlOiAiU2VtYW50aWMgU2Nob2xhciIKb3V0cHV0OiBodG1sX25vdGVib29rCi0tLQoK</div>
 
 
 

diff --git a/crossref.bib b/crossref.bib
@@ -10,17 +10,17 @@ @article{Br_ggmann_2016
 	title = {Endometriosis and its global research architecture: an in-depth density-equalizing mapping analysis},
 	journal = {{BMC} Women{\textquotesingle}s Health}
 }
-
-@article{Br_ggmann_2016,
-	doi = {10.1186/s12905-016-0336-0},
-	url = {https://doi.org/10.1186%2Fs12905-016-0336-0},
-	year = 2016,
-	month = {sep},
-	publisher = {Springer Nature},
-	volume = {16},
-	number = {1},
-	author = {Dörthe Brüggmann and Alexandra Elizabeth-Martinez and Doris Klingelhöfer and David Quarcoo and Jenny M. Jaque and David A. Groneberg},
-	title = {Endometriosis and its global research architecture: an in-depth density-equalizing mapping analysis},
-	journal = {{BMC} Women{\textquotesingle}s Health}
+@article{Nead_2018,
+	doi = {10.1001/jamaoncol.2018.4524},
+	url = {https://doi.org/10.1001%2Fjamaoncol.2018.4524},
+	year = 2018,
+	month = {dec},
+	publisher = {American Medical Association ({AMA})},
+	volume = {4},
+	number = {12},
+	pages = {1778},
+	author = {Kevin T. Nead and Mackenzie R. Wehner and Nandita Mitra},
+	title = {The Use of {\textquotedblleft}Trend{\textquotedblright} Statements to Describe Statistically Nonsignificant Results in the Oncology Literature},
+	journal = {{JAMA} Oncology}
 }
 
diff --git a/e-utilities-lecture-notes/.gitignore b/e-utilities-lecture-notes/.gitignore
diff --git a/grid-2018-11-14/.gitignore b/grid-2018-11-14/.gitignore
diff --git a/p values regular expression b/p values regular expression