fix references, update repo guidelines

docs/about.html

@@ -2765,8 +2765,8 @@ <h3 id="how-to-contact-us">How to contact us?</h3>
 D-10315 Berlin, Germany</p>
 <p><br></p>
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docs/guidelines.html

@@ -2742,18 +2742,21 @@ <h1>Department Guidelines</h1>
 <div class="d-article">
 <section id="the-tldr-version" class="highlightbox">
 <h2>The TL;DR Version</h2>
+<p><br></p>
 <h3 id="general-information">General Information</h3>
 <ul>
 <li>Important lab information (server access, responsibilities,…) can be found on our cloud in the folder <code>Lab_Orga</code>.</li>
 <li>Follow our rules how to call project folders: <code>animal_species_where_what_who</code>.</li>
 <li>Create the project folder structure with our <a href="https://ecodynizw.github.io/posts/d6package/">d6 package</a>: <code>d6::new_project()</code>.</li>
-<li>At the end of a project, transfer <a href="https://ecodynizw.github.io/guidelines.html#repository">your repository</a> to our <a href="https://github.com/EcoDynIZW/">EcoDynIZW account</a>.</li>
-<li>Ask Moritz Wenzler (<a href="mailto:wenzler@izw-berlin.de">wenzler[at]izw-berlin.de</a>) for help of needed.</li>
+<li>For consistent style, we ask you to use our corporate <a href="">d6 theme</a>: <code>d6::theme_d6()</code>.</li>
+<li>At the end of a project, transfer <a href="https://ecodynizw.github.io/guidelines.html#repository">your repository</a> to our <a href="https://github.com/EcoDynIZW/">EcoDynIZW GitHub account</a>.</li>
+<li>Ask Moritz Wenzler (<a href="mailto:wenzler@izw-berlin.de">wenzler[at]izw-berlin.de</a>) for help of needed.<br />
+<br></li>
 </ul>
 <h3 id="information-for-students-bsc-msc-phd">Information for Students (BSc | MSc | PhD)</h3>
 <h4 id="supervisory-meetings">Supervisory Meetings</h4>
 <ul>
-<li>Plan regular meetings with your supervisor(s) at least 3 months ahead (2 weeks for non-regular meetings).</li>
+<li>Plan regular meetings at least 3 months ahead (2 weeks for non-regular meetings).</li>
 <li>Prepare for the meeting! Think about open questions, difficulties encountered, and the timeline for upcoming tasks.</li>
 <li>Write the minutes of the meeting and send it to your supervisor(s).</li>
 </ul>
@@ -2905,11 +2908,7 @@ <h2 id="manuscripts">Manuscript Submissions/Revisions</h2>
 <p>Please find additional information on ‘how to write a scientific paper’, how to avoid statistical pitfalls or how to organize workflows <a href="https://wolke.izw-berlin.de/index.php/apps/files/?dir=/Abteilung-Department%206/LabGuidelines&amp;fileid=346243">here</a>.</p>
 <h2 id="repository">GitHub repository</h2>
 <p>The final step after your paper gets published is to make the GitHub repository public (or create a repository if you haven’t before). The repository should contain clean code and data that runs properly. If you are using R, please make sure to use a R-Project with the given folder structure (see appendix A).</p>
-<p>The title of the repository should contain the last name of the first author, the year, and the abbreviation of the journal (e.g. Smith_2023_Science). Please add the title of the paper as the description (in quotation marks). In the README file please provide the reference of the paper including the DOI as a hyperlink, and the abstract. Add further notes on the files contained and the scripts if needed. or examples see <a href="https://github.com/orgs/EcoDynIZW/repositories">study repositories on our GitHub</a>).</p>
-<p>Finally, make sure to turn the visibility to public and transfer the ownership to the EcoDynIZW GitHub organization.</p>
-<p>If you have need help or have questions please ask the data manager for help.</p>
-<h3 id="example-readme">Example README</h3>
-<p><br></p>
+<p>The title of the repository should contain the last name of the first author, the year, and the abbreviation of the journal (e.g. <code>Smith_2023_Science</code>). Please add the title of the paper as the description (in quotation marks). Please provide the reference of the paper, including the DOI as a hyperlink, and the abstract in the README file. Add further notes on the files contained and the scripts if needed. Please use this template:</p>
 <pre class="text"><code># Smith et al. (2023) *Science*
 
 &gt; **Richard Smith**, Don Joe Radchuk &amp; **Jane Head** (2023): Study title. 
@@ -2921,6 +2920,8 @@ <h3 id="example-readme">Example README</h3>
 
 ... more notes if needed
 </code></pre>
+<p>Add the title in quotation marks as the description and the DOI as link to the repository about (right upper corner). For examples see <a href="https://github.com/orgs/EcoDynIZW/repositories">study repositories on our GitHub</a>).</p>
+<p>Finally, make sure to turn the visibility to public and transfer the ownership to the EcoDynIZW GitHub organization. If you have need help or have questions please ask the data manager for help.</p>
 <p><a href="#toc">↑ Jump back to top.</a><br><br></p>
 <hr />
 <h2 id="appendices">Appendices</h2>

docs/index.html

@@ -2790,8 +2790,8 @@ <h2 class="appendix" id="contact">Contact</h2>
 Coordination: Dr. Conny Landgraf<br />
 <a href="mailto:assist6@izw-berlin.de">assist6[at]izw-berlin.de</a></p>
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 </div>
 <h2 class="appendix" id="address">Address</h2>
 <p>Leibniz Institute for Zoo and Wildlife Research<br />

docs/pubs-2022.html

@@ -2745,20 +2745,13 @@ <h1>Recent Publications</h1>
 <p><br></p>
 <h2 id="section">2022</h2>
 <div class="headerbox">
-<hbox>In Press</hbox>
-</div>
-<p><br></p>
-<ul>
-<li><p>Appleton MR, Courtiol A, Emerton L, …, <strong>Tilker A</strong>, et al. (2022): Protected area personnel and ranger numbers are insufficient to deliver global expectations. NAT SUSTAIN, accepted. doi:<span><a href="https://doi.org/10.1038/s41893-022-00970-0">10.1038/s41893-022-00970-0</a></span></p></li>
-<li><p>McLaughlin J.P, Schroeder J, White AM, Culhane K, Mirts HE, Tarbill G L, Sire L, Page M, Baker E, Moritz M, Brashares J, Young HS, <strong>Sollmann R</strong> (2022): Food webs for three burn severities after wildfire in the Eldorado National Forest, California. NAT SCI DAT.</p></li>
-</ul>
-<div class="headerbox">
 <hbox>Peer-Reviewed Publications</hbox>
 </div>
 <p><br></p>
 <ul>
 <li><p><strong>Alexiou I</strong>, Abrams JF, Coudrat CNZ, Nanthavong C, <strong>Nguyen A</strong>, <strong>Niedballa J</strong>, <strong>Wilting A</strong> , <strong>Tilker A</strong> (2022): Camera-trapping reveals new insights in the ecology of three sympatric muntjacs in an overhunted biodiversity hotspot. MAMM BIOL, <strong>102</strong>, 489–500. doi:<span><a href="https://doi.org/10.1007/s42991-022-00248-0">10.1007/s42991-022-00248-0</a></span></p></li>
 <li><p>Antunes AC, Montanarin A, Gräbin DM, …, <strong>Sollmann R</strong>, …, Ribeiro MC (2022): AMAZONIA CAMTRAP: A dataset of mammal, bird, and reptile species recorded with camera traps in the Amazon forest. ECOLOGY, <strong>103(9)</strong>, e3738. doi:<span><a href="https://doi.org/10.1002/ecy.3738">10.1002/ecy.3738</a></span></p></li>
+<li><p>Appleton MR, Courtiol A, Emerton L, …, <strong>Tilker A</strong>, et al. (2022): Protected area personnel and ranger numbers are insufficient to deliver global expectations. NAT SUSTAIN, <strong>5</strong>, 1100–1110. doi:<span><a href="https://doi.org/10.1038/s41893-022-00970-0">10.1038/s41893-022-00970-0</a></span></p></li>
 <li><p>Asad S, Vitalis V, <strong>Guharajan R</strong>, Abrams JF, Lagan P, Kissing J, Sikui J, <strong>Wilting A</strong>, Rödel MO (2022): Variable species but similar amphibian community responses across habitats following reduced impact logging. GLOB ECOL CONSERV, <strong>35</strong>, e02061. doi:<span><a href="https://doi.org/10.1016/j.gecco.2022.e02061">10.1016/j.gecco.2022.e02061</a></span></p></li>
 <li><p>Bolas EC, <strong>Sollmann R</strong>, Crooks KR, Boydston EE, Shaskey L, Boser CL, Dillon A, Van Vuren DH (2022): Role of microhabitat and temporal activity in facilitating coexistence of endemic carnivores on the California Channel Islands. J MAMMAL, <strong>103</strong>, 18-28. doi:<span><a href="https://doi.org/10.1093/jmammal/gyab125">10.1093/jmammal/gyab125</a></span></p></li>
 <li><p><strong>Benhaiem S</strong>, Kaidatzi S, Hofer H, <strong>East ML</strong> (2022): Long-term reproductive costs of snare injuries in a keystone terrestrial by-catch species. ANIM CONSERV. doi:<span><a href="https://doi.org/10.1111/acv.12798">10.1111/acv.12798</a></span></p></li>
@@ -2815,7 +2808,7 @@ <h2 id="section">2022</h2>
 <ul>
 <li><p>Gimenez O, <strong>Louvrier J</strong>, Lauret V, Santostasi N (2022): Studying Species Demography and Distribution in Natural Conditions: Hidden Markov Models. In Statistical Approaches for Hidden Variables in Ecology (eds N. Peyrard and O. Gimenez). <a href="https://doi.org/10.1002/9781119902799.ch3">https://doi.org/10.1002/9781119902799.ch3</a></p></li>
 <li><p>Papaïx J, Soubeyrand S, Bonnefon O, Walker E, <strong>Louvrier J</strong>, Klein E, Roques L (2022): Inferring Mechanistic Models in Spatial Ecology Using a Mechanistic-Statistical Approach. In Statistical Approaches for Hidden Variables in Ecology (eds N. Peyrard and O. Gimenez). <a href="https://doi.org/10.1002/9781119902799.ch4">https://doi.org/10.1002/9781119902799.ch4</a></p></li>
-<li><p>Thonicke K, Rahner E, Arneth A, Bartkowski B, Bonn A, Döhler C, Finger R, Freitag J, Grosch R, Grossart H.-P, Grützmacher K, Hartman Scholz A, Häuser C, Hickler T, Hölker F, Jähnig S C, Jeschke J, Kasen R, Kastner T, <strong>Kramer-Schadt S</strong>, Krug C, Lakner S, Loft L, Matzdorf B, Meakins F, De Meester L, Monaghan M T, Müller D, Overmann J, Quaas M, <strong>Radchuk V</strong>, Reyer C, Roos C, Scholz I, Schroer S, Sioen G B, Sommer S, Sommerwerk N, Tockner K, Turk Z, Warner B, Wätzold F, Wende W, Veenstra, van der Voort H (2022): 10 Must-Knows aus der Biodiversitätsforschung | 10 Must knows from biodiversity science 2022. Zenodo. <a href="https://doi.org/10.5281/zenodo.6257476">https://doi.org/10.5281/zenodo.6257476</a> | <a href="https://zenodo.org/record/6257527">https://zenodo.org/record/6257527</a></p></li>
+<li><p>Thonicke K, Rahner E, Arneth A, Bartkowski B, Bonn A, Döhler C, Finger R, Freitag J, Grosch R, Grossart H.-P, Grützmacher K, Hartman Scholz A, Häuser C, Hickler T, Hölker F, Jähnig S C, Jeschke J, Kasen R, Kastner T, <strong>Kramer-Schadt S</strong>, Krug C, Lakner S, Loft L, Matzdorf B, Meakins F, De Meester L, Monaghan M T, Müller D, Overmann J, Quaas M, <strong>Radchuk V</strong>, Reyer C, Roos C, Scholz I, Schroer S, Sioen G B, Sommer S, Sommerwerk N, Tockner K, Turk Z, Warner B, Wätzold F, Wende W, Veenstra, van der Voort H (2022): 10 Must-Knows aus der Biodiversitätsforschung 2022 | 10 Must knows from biodiversity science 2022. Leibniz-Forschungsnetzwerk Biodiversität, Potsdam, Deutschland. doi:<span><a href="https://doi.org/10.5281/zenodo.6257476">10.5281/zenodo.6257476</a> | <a href="https://zenodo.org/record/6257527">zenodo.org/record/6257527</a></span></p></li>
 </ul>
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