À propos de ce cours : 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.

Créé par : Johns Hopkins University

Enseigné par : Liliana Florea, PhD, Assistant Professor
McKusick-Nathans Institute of Genetic Medicine

Informations de base	Cours 5 de 8 dans Genomic Data Science Specialization
Langue	English
Comment réussir	Réussissez tous les devoirs notés pour terminer le cours.
Notes des utilisateurs	4.2 étoiles Note moyenne des utilisateurs 4.2Voir ce que disent les étudiants

Programme de cours

SEMAINE 1

Basic Unix Commands

In this module, you will be introduced to command Line Tools for Genomic Data Science

12 vidéos, 5 lectures

Reading: Welcome Message
Reading: Syllabus
Reading: VMBox Download & Instructions
Reading: Pre-Course Survey
Vidéo: Basic Unix Commands 2: Files, Directories, Paths
Vidéo: Basic Unix Commands 3: File Naming
Vidéo: Basic Unix Commands 4: Content Creation
Vidéo: Basic Unix Commands 5: Accessing Content I
Vidéo: Basic Unix Commands 6: Accessing Content II
Vidéo: Basic Unix Commands 7: Redirecting Content
Vidéo: Basic Unix Commands 8: Querying Content
Vidéo: Basic Unix Commands 9: Comparing Content
Vidéo: Basic Unix Commands 10: Archiving Content
Vidéo: Basic Unix Commands 11: Practical Exercises I
Vidéo: Basic Unix Commands 12: Practical Exercises II
Reading: Module 1 Exam Instructions **IMPORTANT**

Noté: Module 1 Quiz

Noté: Module 1 Exam

SEMAINE 2

Week Two

In this module, we'll be taking a look at Sequences and Genomic Features in a sequence of 10 presentations.

11 vidéos, 1 lecture

Vidéo: Sequences and Genomic Features 2: Sequence Representation and Generation
Vidéo: Sequences and Genomic Features 3: Annotation
Vidéo: Sequences and Genomic Features 4.1: Alignment I
Vidéo: Sequences and Genomic Features 4.2: Alignment II
Vidéo: Sequences and Genomic Features 5: Recreating Sequences & Features
Vidéo: Sequences and Genomic Features 6: Genomic Feature Retrieval
Vidéo: Sequences and Genomic Features 7: SAMtools I
Vidéo: Sequences and Genomic Features 8: SAMtools II
Vidéo: Sequences and Genomic Features 9: BEDtools I
Vidéo: Sequences and Genomic Features 10: BEDtools II
Reading: Module 2 Exam Instructions **IMPORTANT**

Noté: Module 2 Quiz

Noté: Module 2 Exam

SEMAINE 3

Week Three

In this module, we'll be going over Alignment and Sequence Variation in another sequence of 8 presentations.

8 vidéos, 1 lecture

Vidéo: Alignment & Sequence Variation 2: Alignment & Variant Detection Tools
Vidéo: Alignment & Sequence Variation 3: VCF
Vidéo: Alignment & Sequence Variation 4: Bowtie
Vidéo: Alignment & Sequence Variation 5: BWA
Vidéo: Alignment & Sequence Variation 6: SAMtools (mpileup)
Vidéo: Alignment & Sequence Variation 7: BCFtools
Vidéo: Alignment & Sequence Variation 8: Variant Calling
Reading: Module 3 Exam Instructions **IMPORTANT**

Noté: Module 3 Quiz

Noté: Module 3 Exam

SEMAINE 4

Week Four

In this module, we'll be going over Tools for Transcriptomics in a sequence of 6 presentations.

8 vidéos, 2 lectures

Vidéo: Tools for Transcriptomics 2: RNA-seq
Vidéo: Tools for Transcriptomics 3.1: Tophat I
Vidéo: Tools for Transcriptomics 3.2: Tophat II
Vidéo: Tools for Transcriptomics 4: Cufflinks
Vidéo: Tools for Transcriptomics 5: Cuffdiff
Vidéo: Tools for Transcriptomics 6.1: Integrated Genomics Viewer I
Vidéo: Tools for Transcriptomics 6.2: Integrated Genomics Viewer II
Reading: Module 4 Exam Instructions **IMPORTANT**
Reading: Post-Course Survey

Noté: Module 4 Quiz

Noté: Module 4 Exam

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Créateurs

Johns Hopkins University

The mission of The Johns Hopkins University is to educate its students and cultivate their capacity for life-long learning, to foster independent and original research, and to bring the benefits of discovery to the world.

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