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manuscript/1-Introduction.md

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+# 1 Introduction
+
+{type: iframe, title:1 Introduction, width:800, height:600, poster:resources/chapt_screen_images/introduction.png}
+![](http://course.pvactools.org/no_toc/introduction.html)
+
+
+

manuscript/2-Running-pVACtools.md

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+# 2 Running pVACtools
+
+{type: iframe, title:2 Running pVACtools, width:800, height:600, poster:resources/chapt_screen_images/running-pvactools.png}
+![](http://course.pvactools.org/no_toc/running-pvactools.html)
+
+
+

manuscript/3-Tour-of-pVACview.md

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+# 3 Tour of pVACview
+
+{type: iframe, title:3 Tour of pVACview, width:800, height:600, poster:resources/chapt_screen_images/tour-of-pvacview.png}
+![](http://course.pvactools.org/no_toc/tour-of-pvacview.html)
+
+
+

manuscript/4-Conclusions.md

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+# 4 Conclusions
+
+{type: iframe, title:4 Conclusions, width:800, height:600, poster:resources/chapt_screen_images/conclusions.png}
+![](http://course.pvactools.org/no_toc/conclusions.html)
+
+
+

manuscript/5-References.md

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+# 5 References
+
+{type: iframe, title:5 References, width:800, height:600, poster:resources/chapt_screen_images/references.png}
+![](http://course.pvactools.org/no_toc/references.html)
+
+
+

manuscript/About-the-Authors.md

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+# About the Authors
+
+{type: iframe, title:About the Authors, width:800, height:600, poster:resources/chapt_screen_images/about-the-authors.png}
+![](http://course.pvactools.org/no_toc/about-the-authors.html)
+
+
+

manuscript/About-this-Course.md

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+# About this Course
+
+{type: iframe, title:About this Course, width:800, height:600, poster:resources/chapt_screen_images/index.png}
+![](http://course.pvactools.org/no_toc/index.html)
+
+
+

manuscript/Book.txt

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+About-this-Course.md
+1-Introduction.md
+2-Running-pVACtools.md
+3-Tour-of-pVACview.md
+4-Conclusions.md
+quiz_1.md
+5-References.md
+About-the-Authors.md

manuscript/quiz_1.md

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+
+{quiz, id: civic_intro, attempts: 10}
+
+## Intro to pVACtools quiz
+
+Choose the best answer.
+
+{choose-answers: 4}
+? What is an example of a class-I MHC prediction algorithm?
+
+C) MHCflurry
+m) ClinVar
+m) GenBank
+o) RefSeq
+o) gnomAD
+
+{choose-answers: 4}
+? Which of the following statements are correct
+1. Neoantigen peptides may be presented by class-I or class-II MHC molecules
+2. pVACtools makes use of an ensemble of neoantigen prediction algorithms
+3. pVACtools leverages both small variants and fusions as sources of neoantigens
+4. pVACtools supports both synthetic long peptide and DNA vector based vaccines
+5. All MHC-binding prediction algorithms have consistent and concordant performance ?
+
+C) All of the examples listed except 5
+m) 1, 3, and 5
+m) 1, 2, and 3
+o) All of the examples except 1 and 5
+o) All of the examples listed
+
+{/quiz}