2018 - Bioinformatics Tutorial - Advanced (2018)
  • Bioinformatics Tutorial - Advanced (2018)
  • Getting Startted
  • PART I Basic Skills
    • Introduction of PART I
    • 1.Setup
    • 2.Linux
    • 3.Bash and Github
    • 4.R
    • 5.Python
    • 6.Perl
    • Conclusion of PART I
  • PART II. Basic Bioinfo Analyses
    • Introduction of PART II
    • 1.Mapping, Annotation and QC
    • 2.Expression Matrix
    • 3.Differential Expression
    • Midterm Conclusion
    • 4.Normalization
    • 5.Control Data
    • 6.Motif and Structure
  • PART III. Advanced Bioinfo Analyses
    • Introduction of PART III
    • 1.Machine Learning
    • 2.Feature Selection
    • 3.Deep Learning
  • Appendix
    • Appendix I. Keep Learning
    • Appendix II. Docker Manual
    • Appendix III. Mapping Protocol
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  • Goal of the Advanced Tutorial
  • Learning Materials
  • Table of Content
  • Virtual Machines
  • Video
  • a) Introduce training on github
  • b) More videos

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Getting Startted

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Last updated 5 years ago

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Goal of the Advanced Tutorial

Be Professional

Learning Materials

  1. Tutorial

    • Advanced Tutorial (this one) |

  2. Teaching (mirror: **)

  3. Teaching (view PDFs on-line only, not downloadable)

  4. **** for students (shared code and documents）

Table of Content

I. Basic Skills

  1. Setup - How to do jobs efficiently and reproducibly

  2. Linux - How to work with command lines

  3. Bash (and Github) - How to set up multiple jobs as a pipeline

  4. R - How to make professional and beautiful plots

  5. Perl/Python - How to program for bioinformatics

II. Basic Bioinfo Analyses

  1. Basic: Mapping, Annotation and QC

  2. Basic: Expression Matrix

  3. Basic: Differential Expression Analysis

  4. Advanced: Normalization

  5. Advanced: Control Data

  6. Advanced: Motif and Structure

III. Advanced Bioinfo Analyses

  1. Machine Learning Basics - How to train and test

  2. Feature Selection - How to find meaningful feature

  3. Deep Learning Basics - one step to AI

Virtual Machines

All code has been tested in cnode @ Lu Lab. We would also provide a Linux docker for our advanced tutorial in the future.

Video

a) Introduce training on github

b) More videos

Basic Tutorial
Additional Tutorial
Videos
Youku Link
PPT
Github
@Youtube
@Bilibili
@Youtube
@Bilibili