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core/core.html

@@ -274,7 +274,6 @@ <h1 class="title">Core Data Analysis for Group Project</h1>
 
 <section id="content" class="level1">
 <h1>Content</h1>
-<p>Overview You are either an integrated masters student doing 88H Group Project or a MSc Bioinformatics student doing 70M</p>
 <section id="week-1-core-1-organising-reproducible-data-analyses" class="level2">
 <h2 class="anchored" data-anchor-id="week-1-core-1-organising-reproducible-data-analyses">Week 1 Core 1 Organising Reproducible Data Analyses</h2>
 <p>Note no R coding (too early for MSc BIN 70M who share the core and omics teaching)</p>

index.html

@@ -8,7 +8,7 @@
 
 <meta name="author" content="Emma Rand">
 
-<title>Data Analysis for Group Project - Data Analysis for the Group Research Project - BIO00088H</title>
+<title>Data Analysis for Group Project - Data Analysis for the Group Research Project</title>
 <style>
 code{white-space: pre-wrap;}
 span.smallcaps{font-variant: small-caps;}
@@ -124,7 +124,7 @@ <h2 id="toc-title">On this page</h2>
 
 <header id="title-block-header" class="quarto-title-block default">
 <div class="quarto-title">
-<h1 class="title">Data Analysis for the Group Research Project - BIO00088H</h1>
+<h1 class="title">Data Analysis for the Group Research Project</h1>
 </div>
 
 
@@ -141,6 +141,7 @@ <h1 class="title">Data Analysis for the Group Research Project - BIO00088H</h1>
 
 <section id="overview" class="level1">
 <h1>Overview</h1>
+<p>You are either an integrated masters student doing 88H Group Project or a MSc Bioinformatics student doing 70M</p>
 <p>Data Analysis for the Group Research Project (BIO00088H) compromises six workshops covering computational skills needed in your project. Three of these are core and taken by everyone and three are specific to your project type.</p>
 <p>The project types are:</p>
 <table class="table">
@@ -182,7 +183,41 @@ <h1>Overview</h1>
 </tbody>
 </table>
 <p>The data analysis workshops are:</p>
-<p>|——–|————————–| | Week 1 | Core 1 | | Week 2 | Core 2 | | Week 3 | omics/structure/images 1 | | Week 4 | omics/structure/images 2 | | Week 5 | omics/structure/images 3 | | Week 6 | Core 3 |</p>
+<table class="table">
+<thead>
+<tr class="header">
+<th>Week</th>
+<th>Data Strand</th>
+</tr>
+</thead>
+<tbody>
+<tr class="odd">
+<td>1</td>
+<td>Core 1</td>
+</tr>
+<tr class="even">
+<td>2</td>
+<td>Core 2</td>
+</tr>
+<tr class="odd">
+<td>3</td>
+<td>omics/structure/images 1</td>
+</tr>
+<tr class="even">
+<td>4</td>
+<td>omics/structure/images 2</td>
+</tr>
+<tr class="odd">
+<td>5</td>
+<td>omics/structure/images 3</td>
+</tr>
+<tr class="even">
+<td>6</td>
+<td>Core 3</td>
+</tr>
+</tbody>
+</table>
+<p>MSc Bioinformatics students do the Core workshops and the ’omics workshops as part of 70M</p>
 <section id="module-learning-outcome-linked-to-this-content" class="level2">
 <h2 class="anchored" data-anchor-id="module-learning-outcome-linked-to-this-content">Module Learning Outcome linked to this content</h2>
 <p>Students who successfully complete this module will be able to</p>

search.json

@@ -9,21 +9,21 @@
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-    "title": "Data Analysis for the Group Research Project - BIO00088H",
+    "title": "Data Analysis for the Group Research Project",
     "section": "",
-    "text": "Data Analysis for the Group Research Project (BIO00088H) compromises six workshops covering computational skills needed in your project. Three of these are core and taken by everyone and three are specific to your project type.\nThe project types are:\n\n\n\n\n\n\n\nProject\nData Strand\n\n\n\n\nStem Cells, Jillian Barlow\n’omics, Emma Rand\n\n\nDevelopmental Biology, Betsy Pownal\n’omics, Emma Rand\n\n\nMicrobial Ecology, Kelly Redeker\n’omics, Emma Rand\n\n\nStructural Biochemistry, Michael Plevin\nmolecular-structure, Jon Agirre\n\n\nNeuroscience, Sean Sweeney\nimage-analysis, Richard Bingham\n\n\nxxxxxxxxxxxx, Richard Maguire\nimage-analysis, Richard Bingham\n\n\n\nThe data analysis workshops are:\n|——–|————————–| | Week 1 | Core 1 | | Week 2 | Core 2 | | Week 3 | omics/structure/images 1 | | Week 4 | omics/structure/images 2 | | Week 5 | omics/structure/images 3 | | Week 6 | Core 3 |\n\n\nStudents who successfully complete this module will be able to\n\nuse appropriate computational techniques to reproducibly process, analyse and visualise data and generate scientific reports based on project work.\n\n\n\n\nAll material is on the VLE so why is this site useful? This site collects everything together in a searchable way. The search icon is on the top right."
+    "text": "You are either an integrated masters student doing 88H Group Project or a MSc Bioinformatics student doing 70M\nData Analysis for the Group Research Project (BIO00088H) compromises six workshops covering computational skills needed in your project. Three of these are core and taken by everyone and three are specific to your project type.\nThe project types are:\n\n\n\n\n\n\n\nProject\nData Strand\n\n\n\n\nStem Cells, Jillian Barlow\n’omics, Emma Rand\n\n\nDevelopmental Biology, Betsy Pownal\n’omics, Emma Rand\n\n\nMicrobial Ecology, Kelly Redeker\n’omics, Emma Rand\n\n\nStructural Biochemistry, Michael Plevin\nmolecular-structure, Jon Agirre\n\n\nNeuroscience, Sean Sweeney\nimage-analysis, Richard Bingham\n\n\nxxxxxxxxxxxx, Richard Maguire\nimage-analysis, Richard Bingham\n\n\n\nThe data analysis workshops are:\n\n\n\nWeek\nData Strand\n\n\n\n\n1\nCore 1\n\n\n2\nCore 2\n\n\n3\nomics/structure/images 1\n\n\n4\nomics/structure/images 2\n\n\n5\nomics/structure/images 3\n\n\n6\nCore 3\n\n\n\nMSc Bioinformatics students do the Core workshops and the ’omics workshops as part of 70M\n\n\nStudents who successfully complete this module will be able to\n\nuse appropriate computational techniques to reproducibly process, analyse and visualise data and generate scientific reports based on project work.\n\n\n\n\nAll material is on the VLE so why is this site useful? This site collects everything together in a searchable way. The search icon is on the top right."
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     "href": "index.html#module-learning-outcome-linked-to-this-content",
-    "title": "Data Analysis for the Group Research Project - BIO00088H",
+    "title": "Data Analysis for the Group Research Project",
     "section": "",
     "text": "Students who successfully complete this module will be able to\n\nuse appropriate computational techniques to reproducibly process, analyse and visualise data and generate scientific reports based on project work."
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-    "title": "Data Analysis for the Group Research Project - BIO00088H",
+    "title": "Data Analysis for the Group Research Project",
     "section": "",
     "text": "All material is on the VLE so why is this site useful? This site collects everything together in a searchable way. The search icon is on the top right."
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@@ -137,7 +137,7 @@
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-    "text": "Overview You are either an integrated masters student doing 88H Group Project or a MSc Bioinformatics student doing 70M\n\n\nNote no R coding (too early for MSc BIN 70M who share the core and omics teaching)\nBefore - Optional revision: What they forgot to teach you about computers: operating systems, file systems, file types, working directories and paths\n\nWhy reproducibility (BIO00058M-Data-science-2020/slides/03_repro_and_intro_to_rmarkdown)\n\nWorkshop\n\nProject organisation: folders, files\nProject oriented workflow\nNaming things\nFile formats\nData management\n\ngoogle drive: https://www.york.ac.uk/it-services/services/drive/#tab-6\ndocumenting\norganisation within files\n\nData files. Similarities and differences\n\nSequences data\nImage data\nStructure data.\n\nKeeping notes\nReadme\nReference managers: Zotero\n\nAfter\n\n\n\nBefore Possibly: Code formatting and style, 😎 Cool code Tips, Code ‘algorithmically.’, Writing functions (R and python??) (BIO00058M-Data-science-2020/slides/03_repro_and_intro_to_rmarkdown)\nWorkshop\nAfter\n\n\n\nBefore (BIO00058M-Data-science-2020/slides/03_repro_and_intro_to_rmarkdown and BIO00058M-Data-science-2020/slides/04_advanced_rmarkdown.html) Literate programming What is quarto markdown basics: text, code chunks, headings yaml automatic numbering of figures and tables cross references special characters citations\nWorkshop\npractice doing the above with your project and data\nAfter"
+    "text": "Note no R coding (too early for MSc BIN 70M who share the core and omics teaching)\nBefore - Optional revision: What they forgot to teach you about computers: operating systems, file systems, file types, working directories and paths\n\nWhy reproducibility (BIO00058M-Data-science-2020/slides/03_repro_and_intro_to_rmarkdown)\n\nWorkshop\n\nProject organisation: folders, files\nProject oriented workflow\nNaming things\nFile formats\nData management\n\ngoogle drive: https://www.york.ac.uk/it-services/services/drive/#tab-6\ndocumenting\norganisation within files\n\nData files. Similarities and differences\n\nSequences data\nImage data\nStructure data.\n\nKeeping notes\nReadme\nReference managers: Zotero\n\nAfter\n\n\n\nBefore Possibly: Code formatting and style, 😎 Cool code Tips, Code ‘algorithmically.’, Writing functions (R and python??) (BIO00058M-Data-science-2020/slides/03_repro_and_intro_to_rmarkdown)\nWorkshop\nAfter\n\n\n\nBefore (BIO00058M-Data-science-2020/slides/03_repro_and_intro_to_rmarkdown and BIO00058M-Data-science-2020/slides/04_advanced_rmarkdown.html) Literate programming What is quarto markdown basics: text, code chunks, headings yaml automatic numbering of figures and tables cross references special characters citations\nWorkshop\npractice doing the above with your project and data\nAfter"
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