• Length:
    4 Weeks
  • Effort:
    8–10 hours per week
  • Price:

    FREE
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  • Institution
  • Subject:
  • Level:
    Intermediate
  • Language:
    English
  • Video Transcript:
    English

Prerequisites

Basic knowledge of:

  • at least one programming language: loops, arrays, stacks, recursion.
  • mathematics: proof by induction, proof by contradiction.

About this course

Building a fully-fledged algorithm to assemble genomes from DNA fragments on a real dataset is an enormous challenge with major demand in the multi-billion dollar biotech industry.

In this capstone project, we will take the training wheels off and let you design your own optimized software program for genome sequencing.

This big data challenge will cover the entire MicroMasters program. After a brief introduction to the steps required to build a genome assembler, we will let you take steps on your own to start working with real data taken from a sequencing machine and see if you can design genome assembly software that can compete with popular software used in hundreds of sequencing labs around the world every day.

What you'll learn

  • Graph algorithms
  • Algorithms for genome assembly
  • Algorithm optimization

This big data challenge will cover the entire program. After a brief introduction to the steps required to build a genome assembler, we will let you take steps on your own to start working with real data taken from a sequencing machine and see if you can design genome assembly software that can compete with popular software used in hundreds of sequencing labs around the world every day.

Meet your instructors

Pavel Pevzner
Ronald R. Taylor Professor of Computer Science
The University of California, San Diego
Phillip Compeau
Assistant Teaching Professor
Carnegie Mellon University

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Learner testimonials

“I write software at a bioscience company, and my duties sometimes have me storing, querying, and organizing bioinformatics data. As a result of your course, I have a much better understanding of the underlying data and analyses. The course has helped me to excel in my job and impress my colleagues.”
-- Previous Student

Who can take this course?

Unfortunately, learners from one or more of the following countries or regions will not be able to register for this course: Iran, Cuba and the Crimea region of Ukraine. While edX has sought licenses from the U.S. Office of Foreign Assets Control (OFAC) to offer our courses to learners in these countries and regions, the licenses we have received are not broad enough to allow us to offer this course in all locations. EdX truly regrets that U.S. sanctions prevent us from offering all of our courses to everyone, no matter where they live.