Introduction to Bioconductor


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Introduction to Bioconductor: The structure, annotation, normalization, and interpretation of genome-scale assays.

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About the course Introduction to Bioconductor

We begin with an introduction to the relevant biology, explaining what we measure and why. Then we focus on the two main measurement technologies: next-generation sequencing and microarrays. We then move on to describing how raw data and experimental information are imported into R and how we use Bioconductor classes to organize these data, whether generated locally or harvested from public repositories or institutional archives. Genomic features are generally identified using intervals in genomic coordinates, and highly efficient algorithms for computing with genomic intervals will be examined in detail. Statistical methods for testing gene-centric or pathway-centric hypotheses with genome-scale data are found in packages such as limma, some of these techniques will be illustrated in lectures and labs.

Given the diversity in the educational background of our students, we have divided the series into seven parts. You can take the entire series or individual courses that interest you. If you are a statistician you should consider skipping the first two or three courses, similarly, if you are a biologist you should consider skipping some of the introductory biology lectures. Note that the statistics and programming aspects of the class ramp up in difficulty relatively quickly across the first three courses. The third course will be teaching advanced statistical concepts such as hierarchical models and by the fourth advanced software engineering skills, such as parallel computing and reproducible research concepts.

These courses make up two Professional Certificates and are self-paced:

Data Analysis for Life Sciences:

Genomics Data Analysis:

This class was supported in part by NIH grant R25GM114818.

HarvardX requires individuals who enroll in its courses on edX to abide by the terms of the edX honor code. HarvardX will take appropriate corrective action in response to violations of theĀ edX honor code, which may include dismissal from the HarvardX course; revocation of any certificates received for the HarvardX course, or other remedies as circumstances warrant. No refunds will be issued in the case of corrective action for such violations. Enrollees who are taking HarvardX courses as part of another program will also be governed by the academic policies of those programs.

HarvardX pursues the science of learning. By registering as an online learner in an HX course, you will also participate in research about learning. Read ourĀ research statementĀ to learn more.

  • What we measure with high-throughput technologies and why
  • Introduction to high-throughput technologies
    1. Next-Generation Sequencing
    2. Microarrays
  • Preprocessing and Normalization
  • The Bioconductor Genomic Ranges Utilities
  • Genomic Annotation
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