Update with new apps (#35)

* update gitignore to not ignore application.yml

* update index.html with new apps

Author: ritamtbsilva

.gitignore

@@ -5,5 +5,4 @@
 **.bkp
 
 shinyproxy/shiny-apps
-shinyproxy/application.yml
 nginx/nginx.conf

shinyproxy/templates/index.html

@@ -137,7 +137,7 @@ <h1><b>
                  <!-- Examples of App Impact -->
                  <p style="color: grey; ">  
                      Impact (examples):
-                      <a href="https://www.nature.com/articles/s41467-019-14020-5#Sec11" style="margin-left:1em">Neurobiology</a>
+                      <a href="https://www.nature.com/articles/s41467-019-14020-5" style="margin-left:1em">Neurobiology</a>
                       <a href="https://www.sciencedirect.com/science/article/pii/S0092867418316246" >  Splicing Regulation</a> 
                      <a href="https://elifesciences.org/articles/47678">Cancer</a> 
 
@@ -202,7 +202,7 @@ <h1> <b>
                  <p style="color: grey;">  
                      Impact (examples):
                      <br> 
-                     <a href="https://pubmed.ncbi.nlm.nih.gov/30856170/">Cancer</a> 
+                     <a href="https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1006832">Cancer</a> 
 
                 </p>
             </div>
@@ -220,7 +220,9 @@ <h1> <b>
 
                 <!-- App Resources -->
                  <p> 
-                    <a href="assets/tutorial_voyAGEr.pdf">Tutorial</a>  
+                    <a href="https://doi.org/10.7554/eLife.88623.3">Paper</a> 
+                    <a href="https://github.com/DiseaseTranscriptomicsLab/voyAGEr">GitHub</a> 
+                    <a href="https://diseasetranscriptomicslab.github.io/voyAGEr/www/voyAGEr-WebAppTutorial.html">Tutorial</a>  
                   </p> 
 
                 <!-- App Description -->
@@ -233,7 +235,6 @@ <h1> <b>
             </div>
          </div>
 
-
          <!-- ------ betAS ------ -->
          <div class="card reveal">
             <div>
@@ -248,7 +249,12 @@ <h1> <b>
                 </b> </h1> 
                 <!-- App Resources -->
                 <p> 
-                    <a href="https://youtu.be/RfMcg3boR5I">Tutorial</a>
+                	<a href="https://rnajournal.cshlp.org/content/30/4/337.abstract">Paper</a> 
+                    <a href="https://github.com/DiseaseTranscriptomicsLab/betAS/tree/dev">GitHub</a> 
+         
+                     Tutorial
+                        <a style="margin-right: 0em;" href="https://compbio.imm.medicina.ulisboa.pt/betas/tutorial">[1]</a>
+                        <a href="https://diseasetranscriptomicslab.github.io/betAS/inst/betAS_tutorial.html">[2]</a>
 
                  </p>
 
@@ -265,8 +271,8 @@ <h1> <b>
                      Impact (examples):
                      <br> 
                      Alternative Splicing    
-                        <a style="margin-right: 0em;" href="https://pubmed.ncbi.nlm.nih.gov/32963109/">[1]</a> 
-                        <a href="https://pubmed.ncbi.nlm.nih.gov/34039990/">[2]</a>  
+                        <a style="margin-right: 0em;" href="https://rnajournal.cshlp.org/content/26/12/1935.long">[1]</a> 
+                        <a href="https://www.nature.com/articles/s41467-021-23505-1">[2]</a>  
 
                 </p>
 
@@ -306,10 +312,30 @@ <h1> <b>
             </div>
          </div>
 
-         <!-- ------ missing card ------ 
+         <!-- ------ markeR ------ -->
+         <div class="card ">
+            <div>
+                <h1> <b> 
+                    <!-- Icon App -->
+                    <i class="fa-solid fa-align-left"></i> 
+                    <!-- Name App --> 
+                    markeR 
+                </b></h1>  
+
+                <!-- App Resources -->
+                 <p>  
+                    <a href="https://github.com/DiseaseTranscriptomicsLab/markeR/">GitHub</a> 
+                 </p>
+
+                 <!-- App Description -->
+                 <p style="font-family: Syne Mono;"> Toolkit for Evaluating Gene Signatures as Phenotype Markers in R  </p>
+            </div>
+         </div>
+
+         <!-- ------ missing card ------ --> 
          <div class="missing_card reveal">
 
-         </div> -->
+         </div> 
 
          <!-- ------ missing card ------ 
          <div class="missing_card reveal">
@@ -551,3 +577,4 @@ <h5><b> <a href = "https://hub.docker.com/r/nunoagostinho/rsem">rsem</a>  </b></
 </body>
 
 </html>
+