Monthly Subscription Starting at AED 99 + VAT

Command Line Tools for Genomic Data Science
  • Level Foundation
  • المدة 12 ساعات hours
  • الطبع بواسطة Johns Hopkins University
  • Offered by

عن

Introduces to the commands that you need to manage and analyze directories, files, and large sets of genomic data. This is the fourth course in the Genomic Big Data Science Specialization from Johns Hopkins University.

الوحدات

Welcome to the course

    • 5 Readings
Show info about module content

5 Readings

  • Welcome Message
  • Syllabus
  • VMBox Download & Instructions
  • Docker Image Download & Instructions
  • Pre-Course Survey

Basic Unix Commands

    • 12 Videos
Show info about module content

12 Videos

  • Basic Unix Commands 1: Content Representation
  • Basic Unix Commands 2: Files, Directories, Paths
  • Basic Unix Commands 3: File Naming
  • Basic Unix Commands 4: Content Creation
  • Basic Unix Commands 5: Accessing Content I
  • Basic Unix Commands 6: Accessing Content II
  • Basic Unix Commands 7: Redirecting Content
  • Basic Unix Commands 8: Querying Content
  • Basic Unix Commands 9: Comparing Content
  • Basic Unix Commands 10: Archiving Content
  • Basic Unix Commands 11: Practical Exercises I
  • Basic Unix Commands 12: Practical Exercises II

Quiz & Exam

    • 1 Readings
    • 2 Assignment
Show info about module content

2 Assignment

  • Module 1 Quiz
  • Module 1 Exam

1 Readings

  • Module 1 Exam Instructions **IMPORTANT**

Module 2

    • 11 Videos
Show info about module content

11 Videos

  • Sequences and Genomic Features 1: Molecular Bio Primer
  • Sequences and Genomic Features 2: Sequence Representation and Generation
  • Sequences and Genomic Features 3: Annotation
  • Sequences and Genomic Features 4.1: Alignment I
  • Sequences and Genomic Features 4.2: Alignment II
  • Sequences and Genomic Features 5: Recreating Sequences & Features
  • Sequences and Genomic Features 6: Genomic Feature Retrieval
  • Sequences and Genomic Features 7: SAMtools I
  • Sequences and Genomic Features 8: SAMtools II
  • Sequences and Genomic Features 9: BEDtools I
  • Sequences and Genomic Features 10: BEDtools II

Quiz & Exam

    • 1 Readings
    • 2 Assignment
Show info about module content

2 Assignment

  • Module 2 Quiz
  • Module 2 Exam

1 Readings

  • Module 2 Exam Instructions **IMPORTANT**

Module 3

    • 8 Videos
Show info about module content

8 Videos

  • Alignment & Sequence Variation 1: Overview
  • Alignment & Sequence Variation 2: Alignment & Variant Detection Tools
  • Alignment & Sequence Variation 3: VCF
  • Alignment & Sequence Variation 4: Bowtie
  • Alignment & Sequence Variation 5: BWA
  • Alignment & Sequence Variation 6: SAMtools (mpileup)
  • Alignment & Sequence Variation 7: BCFtools
  • Alignment & Sequence Variation 8: Variant Calling

Quiz & Exam

    • 1 Readings
    • 2 Assignment
Show info about module content

2 Assignment

  • Module 3 Quiz
  • Module 3 Exam

1 Readings

  • Module 3 Exam Instructions **IMPORTANT**

Module 4

    • 8 Videos
Show info about module content

8 Videos

  • Tools for Transcriptomics 1: Overview
  • Tools for Transcriptomics 2: RNA-seq
  • Tools for Transcriptomics 3.1: Tophat I
  • Tools for Transcriptomics 3.2: Tophat II
  • Tools for Transcriptomics 4: Cufflinks
  • Tools for Transcriptomics 5: Cuffdiff
  • Tools for Transcriptomics 6.1: Integrated Genomics Viewer I
  • Tools for Transcriptomics 6.2: Integrated Genomics Viewer II

Quiz & Exam

    • 1 Readings
    • 2 Assignment
Show info about module content

2 Assignment

  • Module 4 Quiz
  • Module 4 Exam

1 Readings

  • Module 4 Exam Instructions **IMPORTANT**

Post-Course Survey

    • 1 Readings
Show info about module content

1 Readings

  • Post-Course Survey

Auto Summary

Discover the essential tools for managing and analyzing genomic data with the "Command Line Tools for Genomic Data Science" course, part of Johns Hopkins University's Genomic Big Data Science Specialization on Coursera. This foundational course immerses you in the commands necessary for handling directories, files, and extensive genomic datasets, equipping you with practical skills for the data science and AI domain. Spanning 720 minutes of engaging content, the course is designed for beginners and is accessible through a Starter subscription. Ideal for those looking to build a robust foundation in genomic data analysis, this course is perfect for aspiring data scientists and genomic researchers eager to enhance their command line proficiency.

Liliana Florea, PhD
Instructor

Liliana Florea, PhD