Johns Hopkins University - Command Line Tools for Genomic Data Science
- Offered byCoursera
- Public/Government Institute
Command Line Tools for Genomic Data Science at Coursera Overview
Duration | 12 hours |
Total fee | Free |
Mode of learning | Online |
Official Website | Explore Free Course  |
Credential | Certificate |
- Overview
- Highlights
- Course Details
- Curriculum
Command Line Tools for Genomic Data Science at Coursera Highlights
- Earn a shareable certificate upon completion.
- Flexible deadlines according to your schedule.
Command Line Tools for Genomic Data Science at Coursera Course details
- 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.
Command Line Tools for Genomic Data Science at Coursera Curriculum
Basic Unix Commands
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
Welcome Message
Syllabus
VMBox Download & Instructions
Pre-Course Survey
Module 1 Exam Instructions **IMPORTANT**
Module 1 Quiz
Module 1 Exam
Week Two
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
Module 2 Exam Instructions **IMPORTANT**
Module 2 Quiz
Module 2 Exam
Week Three
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
Module 3 Exam Instructions **IMPORTANT**
Module 3 Quiz
Module 3 Exam
Week Four
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
Module 4 Exam Instructions **IMPORTANT**
Post-Course Survey
Module 4 Quiz
Module 4 Exam
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