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jhuapl-bio · Sep 17, 2023 · 4f8b07f · 4f8b07f
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diff --git a/index.html b/index.html
@@ -8,7 +8,23 @@
 </head>
 <body>
     <h1>Welcome the JHU/APL Biological Sciences Datasets Directory</h1>
+    <h2>Reference Links</h2>
 
+
+    <ul>
+        <li><a href="https://github.com/jhuapl-bio/taxtriage/">TaxTriage</a></li>
+        <li><a href="https://github.com/jhuapl-bio/basestack/">Basestack</a></li>
+        <li><a href="https://benlangmead.github.io/aws-indexes/k2">Kraken2 databases to download or use</a></li>
+        <li><a href="https://github.com/jhuapl-bio/GE-Workshop-Sandbox/blob/main/Advanced_Metagenomics.md">Pre install session - metagenomics </a></li>
+        <li><a href="https://github.com/DerrickWood/kraken2">Kraken2</a></li>
+        <li><a href="https://www.nextflow.io/docs/latest/index.html">Nextflow</a></li>
+        <li><a href="https://nf-co.re/">nf-core</a></li>
+        <li><a href="https://www.docker.com/">Docker</a></li>
+        <li><a href="https://jhuapl-bio.github.io/mytax/">Mytax2</a></li>
+        <li><a href="https://fbreitwieser.shinyapps.io/pavian/">Pavian</a></li>
+    </ul>
+
+
     <h2>Download all data here</h2>
     <ul>
         <li><a href="https://github.com/jhuapl-bio/datasets/archive/refs/heads/main.zip">Download</a></li>
@@ -47,6 +63,13 @@ <h2>Krona Outputs</h2>
         <li><a href="outputs/krona/nanosim_metagenome.fastq.html">Long Reads Krona Output</a></li>
         <li><a href="outputs/krona/shortreads.krona.html">Short Reads Krona Output</a></li>
     </ul>
+    <h2>Krona Outputs</h2>
+    <ul>
+        <li><a href="outputs/krona/nanosim_metagenome.fastq.html">Long Reads Krona Output</a></li>
+        <li><a href="outputs/krona/shortreads.krona.html">Short Reads Krona Output</a></li>
+        <li><a href="outputs/krona/nanosim_metagenome.fastq.viral.html">Long Reads Viral - Bad DB</a></li>
+        <li><a href="outputs/krona/iss_reads_R1.fastq.viral.html">Short Reads Krona Viral - Bad DB</a></li>
+    </ul>
 
     <h2>Fastp Outputs</h2>
     <ul>

diff --git a/outputs/.DS_Store b/outputs/.DS_Store