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A Fun Introductory Command Line Exercise: Next Generation Sequencing Quality Analysis with Emoji!

Author(s): Rachael St. Jacques1, Max Maza1, Sabrina Robertson2, Guoqing Lu3, Andrew Lonsdale4, Ray A Enke5

1. Department of Biology, James Madison University 2. Department of Psychology & Neuroscience, University of North Carolina at Chapel Hill 3. Department of Biology and School of Interdisciplinary Informatics, University of Nebraska Omaha 4. ARC Centre of Excellence in Plant Cell Walls, Melbourne University 5. James Madison University

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Summary:
This resource is a fun computer-based intro to command line programming. The activity takes FASTQ NGS data files and runs a fun program called FASTQE.

Licensed under CC Attribution-ShareAlike 4.0 International according to these terms

Version 2.0 - published on 07 Jun 2019 doi:10.25334/Q4D172 - cite this

Keywords

  1. data science
  2. bioinformatics
  3. next generation sequencing
  4. quality control
  5. FASTQ
  6. genomics
  7. programming
  8. NIBLSE
  9. linux
  10. microbiome
  11. Illumina sequencing
  12. command line
  13. FASTQE
  14. FASTP
  15. NGS analysis
  16. terminal
  17. Mac
  18. emoji
  19. Phred score
  20. Trimming
  21. short read

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  2. Audience Level
  3. Activity Length
  4. NIBLSE Core Competencies
  5. NIBLSE Status
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Versions

Version Released DOI Handle Status
2.0 Jun 07, 2019 10.25334/Q4D172 published view version »
1.0 Feb 28, 2019 10.25334/Q4P733 published view version »