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bokulich-lab · Dec 16, 2024 · 2c69cb2 · 2c69cb2
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diff --git a/.buildinfo b/.buildinfo
@@ -1,4 +1,4 @@
 # Sphinx build info version 1
 # This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
-config: fc24f9c6c94d06d3743300cd896f1d86
+config: a44bf83f1d1da4272d9ca0defbd4d8b3
 tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/_sources/intro.md b/_sources/intro.md
@@ -1,4 +1,4 @@
-# MOSHPIT tutorial
+# MOSHPIT tutorials
 
 MOSHPIT (MOdular SHotgun metagenome Pipelines with Integrated provenance Tracking) is a suite of plugins for whole 
 metagenome assembly and analysis as part of the microbiome multi-omics data science platform [QIIME 2](https://qiime2.org/). 

diff --git a/chapters/00_data_retrieval.html b/chapters/00_data_retrieval.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Data retrieval &#8212; MOSHPIT plugin suite</title>
+    <title>Data retrieval &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/00_setup.html b/chapters/00_setup.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Setup &#8212; MOSHPIT plugin suite</title>
+    <title>Setup &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -65,7 +65,7 @@
     <link rel="index" title="Index" href="../genindex.html" />
     <link rel="search" title="Search" href="../search.html" />
     <link rel="next" title="Data retrieval" href="00_data_retrieval.html" />
-    <link rel="prev" title="MOSHPIT tutorial" href="../intro.html" />
+    <link rel="prev" title="MOSHPIT tutorials" href="../intro.html" />
   <meta name="viewport" content="width=device-width, initial-scale=1"/>
   <meta name="docsearch:language" content="en"/>
   <meta name="docsearch:version" content="" />
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>
@@ -430,7 +430,7 @@ <h2>Note on parallelization<a class="headerlink" href="#note-on-parallelization"
       <i class="fa-solid fa-angle-left"></i>
       <div class="prev-next-info">
         <p class="prev-next-subtitle">previous</p>
-        <p class="prev-next-title">MOSHPIT tutorial</p>
+        <p class="prev-next-title">MOSHPIT tutorials</p>
       </div>
     </a>
     <a class="right-next"

diff --git a/chapters/01_filtering/host-filtering.html b/chapters/01_filtering/host-filtering.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Host read removal &#8212; MOSHPIT plugin suite</title>
+    <title>Host read removal &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/01_filtering/intro.html b/chapters/01_filtering/intro.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Quality control &#8212; MOSHPIT plugin suite</title>
+    <title>Quality control &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/01_filtering/quality-filtering.html b/chapters/01_filtering/quality-filtering.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Quality filtering &#8212; MOSHPIT plugin suite</title>
+    <title>Quality filtering &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/02_mag_reconstruction/abundance.html b/chapters/02_mag_reconstruction/abundance.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>MAG abundance estimation &#8212; MOSHPIT plugin suite</title>
+    <title>MAG abundance estimation &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/02_mag_reconstruction/dereplication.html b/chapters/02_mag_reconstruction/dereplication.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>MAG set dereplication &#8212; MOSHPIT plugin suite</title>
+    <title>MAG set dereplication &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/02_mag_reconstruction/intro.html b/chapters/02_mag_reconstruction/intro.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Recovery of Metagenome-assembled Genomes &#8212; MOSHPIT plugin suite</title>
+    <title>Recovery of Metagenome-assembled Genomes &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/02_mag_reconstruction/reconstruction.html b/chapters/02_mag_reconstruction/reconstruction.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Recovery of MAGs &#8212; MOSHPIT plugin suite</title>
+    <title>Recovery of MAGs &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/03_taxonomic_classification/intro.html b/chapters/03_taxonomic_classification/intro.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Taxonomic classification &#8212; MOSHPIT plugin suite</title>
+    <title>Taxonomic classification &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/03_taxonomic_classification/mags.html b/chapters/03_taxonomic_classification/mags.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Taxonomic classification of MAGs &#8212; MOSHPIT plugin suite</title>
+    <title>Taxonomic classification of MAGs &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/03_taxonomic_classification/reads.html b/chapters/03_taxonomic_classification/reads.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Taxonomic classification of reads &#8212; MOSHPIT plugin suite</title>
+    <title>Taxonomic classification of reads &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/04_functional_annotation/intro.html b/chapters/04_functional_annotation/intro.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Functional annotation &#8212; MOSHPIT plugin suite</title>
+    <title>Functional annotation &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/04_functional_annotation/mags.html b/chapters/04_functional_annotation/mags.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Functional annotation &#8212; MOSHPIT plugin suite</title>
+    <title>Functional annotation &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/05_interoperability/export.html b/chapters/05_interoperability/export.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Exporting data and connecting with other tools &#8212; MOSHPIT plugin suite</title>
+    <title>Exporting data and connecting with other tools &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -146,8 +146,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/05_interoperability/import.html b/chapters/05_interoperability/import.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Importing data from other tools &#8212; MOSHPIT plugin suite</title>
+    <title>Importing data from other tools &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/chapters/05_interoperability/intro.html b/chapters/05_interoperability/intro.html
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Interoperability with other tools &#8212; MOSHPIT plugin suite</title>
+    <title>Interoperability with other tools &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -147,8 +147,8 @@
 
 
 
-    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="../../_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="../../_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>

diff --git a/genindex.html b/genindex.html
@@ -7,7 +7,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>Index &#8212; MOSHPIT plugin suite</title>
+    <title>Index &#8212; MOSHPIT tutorials</title>
 
 
 
@@ -146,8 +146,8 @@
 
 
 
-    <img src="_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT plugin suite - Home"/>
-    <img src="_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT plugin suite - Home"/>
+    <img src="_static/logo_light.svg" class="logo__image only-light" alt="MOSHPIT tutorials - Home"/>
+    <img src="_static/logo_dark.svg" class="logo__image only-dark pst-js-only" alt="MOSHPIT tutorials - Home"/>
 
 
 </a></div>