Integrated Assignment

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fyousif edited this page Apr 27, 2015 · 44 revisions

#5-iv. Integrated assignment ###Readings: http://www.ncbi.nlm.nih.gov/pubmed/21571633 [download]

###Assignment Questions Assignment [download word version]

Assignment [download PDF version] ###Assignment Questions with Answers (will be posted at the end of the day Thursday)

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Table of Contents
Module 0: Authors | Citation | Syntax | Intro to AWS | Log into AWS | Unix | Environment | Resources
Module 1: Installation | Reference Genomes | Annotations | Indexing | Data | Data QC
Module 2: Adapter Trim | Alignment | IGV | Alignment Visualization | Alignment QC
Module 3: Expression | Differential Expression | DE Visualization
Module 4: Alignment Free - Kallisto
Module 5: Ref Guided | De novo | Merging | Differential Splicing | Splicing Visualization
Module 6: Trinity
Module 7: Trinotate
Appendix: Saving Results | Abbreviations | Lectures | Practical Exercise Solutions | Integrated Assignment | Proposed Improvements | AWS Setup