diff --git a/404.html b/404.html
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@@ -71,7 +71,7 @@
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-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
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@@ -133,7 +133,7 @@ <h2 data-toc-skip>Contents</h2>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
 </div>
 
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diff --git a/articles/Structstrings.html b/articles/Structstrings.html
index 4c0472f..980e612 100644
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+++ b/articles/Structstrings.html
@@ -31,7 +31,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -67,13 +67,13 @@
 
       
 
-      </header><div class="row">
+      </header><script src="Structstrings_files/accessible-code-block-0.0.1/empty-anchor.js"></script><div class="row">
   <div class="col-md-9 contents">
     <div class="page-header toc-ignore">
       <h1 data-toc-skip>Structstrings</h1>
                         <h4 class="author">Felix G.M. Ernst</h4>
             
-            <h4 class="date">2020-03-26</h4>
+            <h4 class="date">2020-07-18</h4>
       
       <small class="dont-index">Source: <a href="https://github.com/FelixErnst/Structstrings/blob/master/vignettes/Structstrings.Rmd"><code>vignettes/Structstrings.Rmd</code></a></small>
       <div class="hidden name"><code>Structstrings.Rmd</code></div>
@@ -83,7 +83,7 @@ <h4 class="date">2020-03-26</h4>
     
         <div class="abstract">
       <p class="abstract">Abstract</p>
-      Classes for RNA sequences with secondary structure informations
+      <p>Classes for RNA sequences with secondary structure informations</p>
     </div>
     
 <script type="text/javascript">
@@ -281,54 +281,39 @@ <h1 class="hasAnchor">
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 <a href="#session-info" class="anchor"></a>Session info</h1>
 <div class="sourceCode" id="cb38"><html><body><pre class="r"><span class="fu"><a href="https://rdrr.io/r/utils/sessionInfo.html">sessionInfo</a></span>()</pre></body></html></div>
-<pre><code>## R Under development (unstable) (2020-03-13 r77948)
+<pre><code>## R version 4.0.2 (2020-06-22)
 ## Platform: x86_64-pc-linux-gnu (64-bit)
-## Running under: Ubuntu 16.04.6 LTS
+## Running under: Ubuntu 18.04.4 LTS
 ## 
 ## Matrix products: default
-## BLAS:   /home/travis/R-bin/lib/R/lib/libRblas.so
-## LAPACK: /home/travis/R-bin/lib/R/lib/libRlapack.so
+## BLAS:   /usr/lib/x86_64-linux-gnu/openblas/libblas.so.3
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+##  [1] LC_CTYPE=C.UTF-8       LC_NUMERIC=C           LC_TIME=C.UTF-8       
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+##  [7] LC_PAPER=C.UTF-8       LC_NAME=C              LC_ADDRESS=C          
+## [10] LC_TELEPHONE=C         LC_MEASUREMENT=C.UTF-8 LC_IDENTIFICATION=C   
 ## 
 ## attached base packages:
 ## [1] parallel  stats4    stats     graphics  grDevices utils     datasets 
 ## [8] methods   base     
 ## 
 ## other attached packages:
-## [1] Structstrings_1.3.5 Biostrings_2.55.7   XVector_0.27.2     
-## [4] IRanges_2.21.8      S4Vectors_0.25.14   BiocGenerics_0.33.3
-## [7] BiocStyle_2.15.6   
+## [1] Structstrings_1.5.2 Biostrings_2.57.2   XVector_0.29.3     
+## [4] IRanges_2.23.10     S4Vectors_0.27.12   BiocGenerics_0.35.4
+## [7] BiocStyle_2.17.0   
 ## 
 ## loaded via a namespace (and not attached):
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-## [17] pkgdown_1.5.0.9000         xfun_0.12                 
-## [19] stringr_1.4.0              knitr_1.28                
-## [21] assertive.sets_0.0-3       assertive.matrices_0.0-2  
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-## [33] magrittr_1.5               assertive.models_0.0-2    
-## [35] assertive.numbers_0.0-2    backports_1.1.5           
-## [37] codetools_0.2-16           htmltools_0.4.0           
-## [39] MASS_7.3-51.5              assertthat_0.2.1          
-## [41] stringi_1.4.6              assertive.data.uk_0.0-2   
-## [43] assertive.reflection_0.0-4 crayon_1.3.4</code></pre>
+##  [1] knitr_1.29          magrittr_1.5        zlibbioc_1.35.0    
+##  [4] MASS_7.3-51.6       R6_2.4.1            rlang_0.4.7        
+##  [7] stringr_1.4.0       tools_4.0.2         xfun_0.15          
+## [10] htmltools_0.5.0     yaml_2.2.1          assertthat_0.2.1   
+## [13] digest_0.6.25       rprojroot_1.3-2     pkgdown_1.5.1      
+## [16] crayon_1.3.4        bookdown_0.20       BiocManager_1.30.10
+## [19] fs_1.4.2            memoise_1.1.0       evaluate_0.14      
+## [22] rmarkdown_2.3       stringi_1.4.6       compiler_4.0.2     
+## [25] desc_1.2.0          backports_1.1.8</code></pre>
 <p><a name="References"></a></p>
 </div>
 <div id="references" class="section level1 unnumbered">
@@ -336,13 +321,13 @@ <h1 class="hasAnchor">
 <a href="#references" class="anchor"></a>References</h1>
 <div id="refs" class="references">
 <div id="ref-Pages">
-<p>H. Pagès, P. Aboyoun, R. Gentleman, and S. DebRoy. n.d. “Biostrings.” Bioconductor. <a href="https://doi.org/10.18129/B9.bioc.Biostrings" class="uri">https://doi.org/10.18129/B9.bioc.Biostrings</a>.</p>
+<p>H. Pagès, P. Aboyoun, R. Gentleman, and S. DebRoy. n.d. “Biostrings.” Bioconductor. <a href="https://doi.org/10.18129/B9.bioc.Biostrings">https://doi.org/10.18129/B9.bioc.Biostrings</a>.</p>
 </div>
 <div id="ref-Juhling-2009">
-<p>Jühling, Frank, Mario Mörl, Roland K. Hartmann, Mathias Sprinzl, Peter F. Stadler, and Joern Pütz. 2009. “TRNAdb 2009: Compilation of tRNA Sequences and tRNA Genes.” <em>Nucleic Acids Research</em> 37 (Database issue): D159–62. <a href="https://doi.org/10.1093/nar/gkn772" class="uri">https://doi.org/10.1093/nar/gkn772</a>.</p>
+<p>Jühling, Frank, Mario Mörl, Roland K. Hartmann, Mathias Sprinzl, Peter F. Stadler, and Joern Pütz. 2009. “TRNAdb 2009: Compilation of tRNA Sequences and tRNA Genes.” <em>Nucleic Acids Research</em> 37 (Database issue): D159–62. <a href="https://doi.org/10.1093/nar/gkn772">https://doi.org/10.1093/nar/gkn772</a>.</p>
 </div>
 <div id="ref-Lorenz-2011">
-<p>Lorenz, Ronny, Stephan H. Bernhart, Christian Höner Zu Siederdissen, Hakim Tafer, Christoph Flamm, Peter F. Stadler, and Ivo L. Hofacker. 2011. “ViennaRNA Package 2.0.” <em>Algorithms for Molecular Biology : AMB</em> 6: 26. <a href="https://doi.org/10.1186/1748-7188-6-26" class="uri">https://doi.org/10.1186/1748-7188-6-26</a>.</p>
+<p>Lorenz, Ronny, Stephan H. Bernhart, Christian Höner Zu Siederdissen, Hakim Tafer, Christoph Flamm, Peter F. Stadler, and Ivo L. Hofacker. 2011. “ViennaRNA Package 2.0.” <em>Algorithms for Molecular Biology : AMB</em> 6: 26. <a href="https://doi.org/10.1186/1748-7188-6-26">https://doi.org/10.1186/1748-7188-6-26</a>.</p>
 </div>
 <div id="ref-Lowe-1997">
 <p>Lowe, T. M., and S. R. Eddy. 1997. “TRNAscan-Se: A Program for Improved Detection of Transfer Rna Genes in Genomic Sequence.” <em>Nucleic Acids Research</em> 25 (5): 955–64.</p>
@@ -366,7 +351,7 @@ <h1 class="hasAnchor">
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
 </div>
 
       </footer>
diff --git a/articles/Structstrings_files/accessible-code-block-0.0.1/empty-anchor.js b/articles/Structstrings_files/accessible-code-block-0.0.1/empty-anchor.js
new file mode 100644
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+++ b/articles/Structstrings_files/accessible-code-block-0.0.1/empty-anchor.js
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diff --git a/articles/index.html b/articles/index.html
index 40f7d41..68eb8a1 100644
--- a/articles/index.html
+++ b/articles/index.html
@@ -71,7 +71,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -132,7 +132,7 @@ <h3>All vignettes</h3>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
 </div>
 
       </footer>
diff --git a/authors.html b/authors.html
index 6af1097..2a9b740 100644
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+++ b/authors.html
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       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -132,7 +132,7 @@ <h1>Authors</h1>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
 </div>
 
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diff --git a/index.html b/index.html
index 2091d9a..177b4ce 100644
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+++ b/index.html
@@ -38,7 +38,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -77,11 +77,12 @@
       </header><div class="row">
   <div class="contents col-md-9">
 
-<div id="structstrings-implementation-of-the-dot-bracket-annotations-with-biostrings-build-status-codecov" class="section level1">
+<div id="structstrings-implementation-of-the-dot-bracket-annotations-with-biostrings-" class="section level1">
 <div class="page-header"><h1 class="hasAnchor">
-<a href="#structstrings-implementation-of-the-dot-bracket-annotations-with-biostrings-build-status-codecov" class="anchor"></a>Structstrings: implementation of the dot bracket annotations with Biostrings <a href="https://travis-ci.com/FelixErnst/Structstrings"><img src="https://travis-ci.com/FelixErnst/Structstrings.svg?branch=master" alt="Build Status"></a> <a href="https://codecov.io/gh/FelixErnst/Structstrings"><img src="https://codecov.io/gh/FelixErnst/Structstrings/branch/master/graph/badge.svg" alt="codecov"></a>
+<a href="#structstrings-implementation-of-the-dot-bracket-annotations-with-biostrings-" class="anchor"></a>Structstrings: implementation of the dot bracket annotations with Biostrings <img src="https://raw.githubusercontent.com/Bioconductor/BiocStickers/master/Structstrings/Structstrings.png" height="300" align="right">
 </h1></div>
-<p><img src="https://raw.githubusercontent.com/Bioconductor/BiocStickers/master/Structstrings/Structstrings.png" height="300" align="right"></p>
+<!-- badges: start -->
+
 <p>The <code>Structstrings</code> package implements the widely used dot bracket annotation for storing base pairing information in structured RNA. For example it is heavily used in the ViennaRNA (<a href="#Literature">Lorenz et al. 2011</a>) package, the tRNAscan-SE (<a href="#Literature">Lowe et al. 1997</a>) software and the tRNAdb (<a href="#Literature">Juehling et al. 2009</a>).</p>
 <p><code>Structstrings</code> uses the infrastructure provided by the <a href="#Literature">Biostrings</a> package and derives the class <code>DotBracketString</code> and related classes from the <code>BString</code> class. From these base pair tables can be produced for in depth analysis, for which the <code>DotBracketDataFrame</code> class is derived from the <code>DataFrame</code> class. In addition, the loop indices of the base pairs can be retrieved as a <code>LoopIndexList</code>, a derivate of the <code>IntegerList</code> class. Generally, all classes check automatically for the validity of the base pairing information.</p>
 <p>The conversion of the <code>DotBracketString</code> to the base pair table and the loop indices is implemented in C for efficiency. The C implementation is inspired by the <a href="https://www.tbi.univie.ac.at/RNA/">ViennaRNA</a> package to a large extent.</p>
@@ -107,11 +108,9 @@ <h2 class="hasAnchor">
 <h1 class="hasAnchor">
 <a href="#literature" class="anchor"></a>Literature</h1>
 <ul>
-<li>Lorenz, Ronny; Bernhart, Stephan H.; Höner zu Siederdissen, Christian; Tafer, Hakim; Flamm, Christoph; Stadler, Peter F.; Hofacker, Ivo L. (2011): “ViennaRNA Package 2.0”. Algorithms for Molecular Biology 6:26. <a href="doi:%5B10.1186/1748-7188-6-26%5D(https://doi.org/10.1186/1748-7188-6-26)" class="uri">doi:[10.1186/1748-7188-6-26](https://doi.org/10.1186/1748-7188-6-26)</a>
-</li>
-<li>Lowe, T.M.; Eddy, S.R.(1997): “tRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence”. Nucl. Acids Res. 25: 955-964. <a href="doi:%5B10.1093/nar/25.5.955%5D(https://doi.org/10.1093/nar/25.5.955)" class="uri">doi:[10.1093/nar/25.5.955](https://doi.org/10.1093/nar/25.5.955)</a>
-</li>
-<li>Jühling, Frank; Mörl, Mario; Hartmann, Roland K.; Sprinzl, Mathias; Stadler, Peter F.; Pütz, Joern (2009): “TRNAdb 2009: Compilation of tRNA Sequences and tRNA Genes.” Nucleic Acids Research 37 (suppl_1): D159–D162. <a href="doi:%5B10.1093/nar/gkn772%5D(https://doi.org/10.1093/nar/gkn772)" class="uri">doi:[10.1093/nar/gkn772](https://doi.org/10.1093/nar/gkn772)</a>.</li>
+<li>Lorenz, Ronny; Bernhart, Stephan H.; Höner zu Siederdissen, Christian; Tafer, Hakim; Flamm, Christoph; Stadler, Peter F.; Hofacker, Ivo L. (2011): “ViennaRNA Package 2.0”. Algorithms for Molecular Biology 6:26. <a href="doi:%5B10.1186/1748-7188-6-26" class="uri">doi:[10.1186/1748-7188-6-26</a>](<a href="https://doi.org/10.1186/1748-7188-6-26" class="uri">https://doi.org/10.1186/1748-7188-6-26</a>)</li>
+<li>Lowe, T.M.; Eddy, S.R.(1997): “tRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence”. Nucl. Acids Res. 25: 955-964. <a href="doi:%5B10.1093/nar/25.5.955" class="uri">doi:[10.1093/nar/25.5.955</a>](<a href="https://doi.org/10.1093/nar/25.5.955" class="uri">https://doi.org/10.1093/nar/25.5.955</a>)</li>
+<li>Jühling, Frank; Mörl, Mario; Hartmann, Roland K.; Sprinzl, Mathias; Stadler, Peter F.; Pütz, Joern (2009): “TRNAdb 2009: Compilation of tRNA Sequences and tRNA Genes.” Nucleic Acids Research 37 (suppl_1): D159–D162. <a href="doi:%5B10.1093/nar/gkn772" class="uri">doi:[10.1093/nar/gkn772</a>](<a href="https://doi.org/10.1093/nar/gkn772" class="uri">https://doi.org/10.1093/nar/gkn772</a>).</li>
 <li>Pagès, H.; Aboyoun, P.; Gentleman, R.; DebRoy, S. (2018). “Biostrings: Efficient manipulation of biological strings.” R package version 2.50.1.</li>
 </ul>
 </div>
@@ -143,7 +142,17 @@ <h2>Developers</h2>
 </ul>
 </div>
 
-  </div>
+  <div class="dev-status">
+<h2>Dev status</h2>
+<ul class="list-unstyled">
+<li><a href="https://github.com/FelixErnst/Structstrings/actions/"><img src="https://github.com/FelixErnst/Structstrings/workflows/R-CMD-check/badge.svg" alt="R-CMD-check"></a></li>
+<li><a href="https://travis-ci.com/FelixErnst/Structstrings"><img src="https://travis-ci.com/FelixErnst/Structstrings.svg?branch=master" alt="Build Status"></a></li>
+<li><a href="http://bioconductor.org/checkResults/devel/bioc-LATEST/Structstrings/"><img src="https://bioconductor.org/shields/build/devel/bioc/Structstrings.svg" alt="BioC Build"></a></li>
+<li><a href="https://codecov.io/gh/FelixErnst/Structstrings"><img src="https://codecov.io/gh/FelixErnst/Structstrings/branch/master/graph/badge.svg" alt="codecov"></a></li>
+<li><a href="https://doi.org/doi:10.18129/B9.bioc.Structstrings"><img src="https://bioconductor.org/shields/years-in-bioc/Structstrings.svg" alt="BioC Years"></a></li>
+</ul>
+</div>
+</div>
 </div>
 
 
@@ -152,7 +161,7 @@ <h2>Developers</h2>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
 </div>
 
       </footer>
diff --git a/pkgdown.yml b/pkgdown.yml
index 0703f36..df656f0 100644
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+++ b/pkgdown.yml
@@ -1,7 +1,7 @@
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 articles:
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+last_built: 2020-07-18T13:59Z
 
diff --git a/reference/DotBracketDataFrame.html b/reference/DotBracketDataFrame.html
index fd28b75..22322e7 100644
--- a/reference/DotBracketDataFrame.html
+++ b/reference/DotBracketDataFrame.html
@@ -88,7 +88,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -241,7 +241,7 @@ <h2 data-toc-skip>Contents</h2>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
 </div>
 
       </footer>
diff --git a/reference/DotBracketString.html b/reference/DotBracketString.html
index c1c4704..4611e2e 100644
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+++ b/reference/DotBracketString.html
@@ -88,7 +88,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -224,7 +224,7 @@ <h2 data-toc-skip>Contents</h2>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
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       </footer>
diff --git a/reference/DotBracketStringSet-io.html b/reference/DotBracketStringSet-io.html
index 922039a..2526f15 100644
--- a/reference/DotBracketStringSet-io.html
+++ b/reference/DotBracketStringSet-io.html
@@ -79,7 +79,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -225,7 +225,7 @@ <h2 data-toc-skip>Contents</h2>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
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       </footer>
diff --git a/reference/LoopIndexList.html b/reference/LoopIndexList.html
index b1a718e..1bcf7a9 100644
--- a/reference/LoopIndexList.html
+++ b/reference/LoopIndexList.html
@@ -75,7 +75,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -161,7 +161,7 @@ <h2 data-toc-skip>Contents</h2>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
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diff --git a/reference/Structstrings-data.html b/reference/Structstrings-data.html
index 501b3b5..31dae7b 100644
--- a/reference/Structstrings-data.html
+++ b/reference/Structstrings-data.html
@@ -72,7 +72,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -152,7 +152,7 @@ <h2 data-toc-skip>Contents</h2>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
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       </footer>
diff --git a/reference/Structstrings-internals.html b/reference/Structstrings-internals.html
index 3b75103..fd19292 100644
--- a/reference/Structstrings-internals.html
+++ b/reference/Structstrings-internals.html
@@ -74,7 +74,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -135,10 +135,10 @@ <h1>Structstrings internals</h1>
 STRUCTURE_CLOSE_CHR
 
 # S4 method for DotBracketDataFrame
-[(x, i, j, ...) <- value
+[(x, i, j, ...) &lt;- value
 
 # S4 method for CompressedSplitDotBracketDataFrameList
-colnames(x) <- value</pre>
+colnames(x) &lt;- value</pre>
 
     <h2 class="hasAnchor" id="arguments"><a class="anchor" href="#arguments"></a>Arguments</h2>
     <table class="ref-arguments">
@@ -188,7 +188,7 @@ <h2 data-toc-skip>Contents</h2>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
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       </footer>
diff --git a/reference/Structstrings.html b/reference/Structstrings.html
index ad7c2f2..bd1c542 100644
--- a/reference/Structstrings.html
+++ b/reference/Structstrings.html
@@ -93,7 +93,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -198,7 +198,7 @@ <h2 data-toc-skip>Contents</h2>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
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       </footer>
diff --git a/reference/StructuredXStringSet.html b/reference/StructuredXStringSet.html
index 7e4b543..aee181b 100644
--- a/reference/StructuredXStringSet.html
+++ b/reference/StructuredXStringSet.html
@@ -79,7 +79,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -229,7 +229,7 @@ <h2 data-toc-skip>Contents</h2>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
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       </footer>
diff --git a/reference/convertAnnotation.html b/reference/convertAnnotation.html
index 68fa4b7..b3963a9 100644
--- a/reference/convertAnnotation.html
+++ b/reference/convertAnnotation.html
@@ -74,7 +74,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -166,7 +166,7 @@ <h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examp
     <pre class="examples"><div class='input'><span class='no'>str</span> <span class='kw'>&lt;-</span> <span class='st'>"((.))..[[..]]...{{..}}......."</span>
 <span class='no'>dbs</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='DotBracketString.html'>DotBracketString</a></span>(<span class='no'>str</span>)
 <span class='fu'>convertAnnotation</span>(<span class='no'>dbs</span>, <span class='fl'>1L</span>, <span class='fl'>2L</span>)</div><div class='output co'>#&gt; 29-letter DotBracketString object
-#&gt; seq: &lt;&lt;.&gt;&gt;..[[..]]...{{..}}.......</div></pre>
+#&gt; seq: <span style='color: #000000;background-color: #00BB00;'>&lt;&lt;</span><span style='color: #BBBBBB;background-color: #000000;'>.</span><span style='color: #000000;background-color: #BB0000;'>&gt;&gt;</span><span style='color: #BBBBBB;background-color: #000000;'>..</span><span style='color: #000000;background-color: #00BB00;'>[[</span><span style='color: #BBBBBB;background-color: #000000;'>..</span><span style='color: #000000;background-color: #BB0000;'>]]</span><span style='color: #BBBBBB;background-color: #000000;'>...</span><span style='color: #000000;background-color: #00BB00;'>{{</span><span style='color: #BBBBBB;background-color: #000000;'>..</span><span style='color: #000000;background-color: #BB0000;'>}}</span><span style='color: #BBBBBB;background-color: #000000;'>.......</span><span></div></span></pre>
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   <div class="col-md-3 hidden-xs hidden-sm" id="pkgdown-sidebar">
     <nav id="toc" data-toggle="toc" class="sticky-top">
@@ -182,7 +182,7 @@ <h2 data-toc-skip>Contents</h2>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
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diff --git a/reference/getBasePairing.html b/reference/getBasePairing.html
index d3340e3..a080956 100644
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+++ b/reference/getBasePairing.html
@@ -90,7 +90,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -274,7 +274,7 @@ <h2 data-toc-skip>Contents</h2>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
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diff --git a/reference/index.html b/reference/index.html
index 66d136c..e5bd49c 100644
--- a/reference/index.html
+++ b/reference/index.html
@@ -71,7 +71,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">Structstrings</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.5.2</span>
       </span>
     </div>
 
@@ -215,7 +215,7 @@ <h2 data-toc-skip>Contents</h2>
 </div>
 
 <div class="pkgdown">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.0.9000.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.5.1.</p>
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