About this Course
4.0
147 ratings
33 reviews
Specialization
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100% online

Start instantly and learn at your own schedule.
Flexible deadlines

Flexible deadlines

Reset deadlines in accordance to your schedule.
Hours to complete

Approx. 16 hours to complete

Suggested: 6 hours/week...
Available languages

English

Subtitles: English

Skills you will gain

BioinformaticsBioconductorGenomicsR Programming
Specialization
100% online

100% online

Start instantly and learn at your own schedule.
Flexible deadlines

Flexible deadlines

Reset deadlines in accordance to your schedule.
Hours to complete

Approx. 16 hours to complete

Suggested: 6 hours/week...
Available languages

English

Subtitles: English

Syllabus - What you will learn from this course

Week
1
Hours to complete
3 hours to complete

Week One

The class will cover how to install and use Bioconductor software. We will discuss common data structures, including ExpressionSets, SummarizedExperiment and GRanges used across several types of analyses....
Reading
16 videos (Total 126 min), 3 readings, 1 quiz
Video16 videos
Installing R on A Mac 2m
Installing R Studio on a Mac 1m
What is Bioconductor7m
Installing Bioconductor3m
The Bioconductor Website9m
Useful Online Resources5m
R Base Types18m
GRanges - Overview4m
IRanges - Basic Usage12m
GenomicRanges - GRanges8m
GenomicRanges - Basic GRanges Usage8m
GenomicRanges - seqinfo6m
AnnotationHub8m
Usecase: AnnotationHub and GRanges, part 112m
Usecase: AnnotationHub and GRanges, part 213m
Reading3 readings
Welcome10m
Syllabus10m
Pre Course Survey10m
Quiz1 practice exercise
Quiz 120m
Week
2
Hours to complete
2 hours to complete

Week Two

In this week we will learn how to represent and compute on biological sequences, both at the whole-genome level and at the level of millions of short reads....
Reading
8 videos (Total 81 min), 1 quiz
Video8 videos
BSgenome6m
Biostrings - Matching6m
BSgenome - Views9m
GenomicRanges - Rle12m
GenomicRanges - Lists6m
GenomicFeatures18m
rtracklayer - Data Import14m
Quiz1 practice exercise
Quiz 220m
Week
3
Hours to complete
2 hours to complete

Week Three

In this week we will cover Basic Data Types, ExpressionSet, biomaRt, and R S4....
Reading
9 videos (Total 79 min), 1 quiz
Video9 videos
Annotation Overview4m
ExpressionSet Overview4m
ExpressionSet9m
SummarizedExperiment7m
GEOquery6m
biomaRt13m
R S4 Classes16m
R S4 Methods10m
Quiz1 practice exercise
Quiz 320m
Week
4
Hours to complete
2 hours to complete

Week Four

In this week, we will cover Getting data in Bioconductor, Rsamtools, oligo, limma, and minfi...
Reading
7 videos (Total 81 min), 1 reading, 1 quiz
Video7 videos
Short Read4m
Rsamtools12m
oligo14m
limma16m
minfi11m
Count-based RNA-seq analysis15m
Reading1 reading
Post Course Survey10m
Quiz1 practice exercise
Quiz 420m
4.0
33 ReviewsChevron Right

Top Reviews

By MAMar 12th 2016

Excellent introduction to Bioconductor. Thanks to the team. However, absence of inputs from TA or Instructor was felt in the discussion.

By ABApr 12th 2018

Amazing course, motivated me to use bio conductor for descriptive seq studies of DNA.

Instructor

Avatar

Kasper Daniel Hansen, PhD

Assistant Professor, Biostatistics and Genetic Medicine
Bloomberg School of Public Health

About 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....

About the Genomic Data Science Specialization

This specialization covers the concepts and tools to understand, analyze, and interpret data from next generation sequencing experiments. It teaches the most common tools used in genomic data science including how to use the command line, Python, R, Bioconductor, and Galaxy. The sequence is a stand alone introduction to genomic data science or a perfect compliment to a primary degree or postdoc in biology, molecular biology, or genetics. To audit Genomic Data Science courses for free, visit https://www.coursera.org/jhu, click the course, click Enroll, and select Audit....
Genomic Data Science

Frequently Asked Questions

  • Once you enroll for a Certificate, you’ll have access to all videos, quizzes, and programming assignments (if applicable). Peer review assignments can only be submitted and reviewed once your session has begun. If you choose to explore the course without purchasing, you may not be able to access certain assignments.

  • When you enroll in the course, you get access to all of the courses in the Specialization, and you earn a certificate when you complete the work. Your electronic Certificate will be added to your Accomplishments page - from there, you can print your Certificate or add it to your LinkedIn profile. If you only want to read and view the course content, you can audit the course for free.

More questions? Visit the Learner Help Center.