Agricultural and Biosystems Engineering Publications

Authors

Michael R. Crusoe, Michigan State University
Hussein F. Alameldin, Michigan State University
Sherine Awad, University of California, Davis
Elmar Boucher, Oregon Health and Science University
Adam Caldwell, San Jose State University
Reed Cartwright, Arizona State University
Amanda Charbonneau, Michigan State University
Bede Constantinides, University of Manchester
Greg Edvenson, Micron Technology
Scott Fay, Invitae
Jacob Fenton, Michigan State University
Thomas Fenzl
Jordan Fish, Michigan State University
Leonor Garcia-Gutierrez, University of Warwick
Phillip Garland, Eastlake Data
Jonathan Gluck, University of Maryland, College Park
Iván González, Massachusetts General Hospital
Sarah Guermond
Jiarong Guo, Michigan State University
Aditi Gupta, Michigan State University
Joshua R. Herr, Michigan State University
Adina C. Howe, Iowa State UniversityFollow
Alex Hyer, University of Utah
Andreas Härpfer, ConSol* Software GmbH
Luiz Irber, Michigan State University
Rhys Kidd
David Lin, Verdematics
Justin Lippi
Tamer Mansour, University of California, Davis
Pamela McA'Nulty, Addgene
Erin McDonald, Michigan State University
Jessica Mizzi, Michigan State University
Kevin D. Murray, Australian National University
Joshua R. Nahum, Michigan State University
Kaben Nanlohy
Alexander Johan Nederbragt, University of Oslo
Humberto Ortiz-Zuazaga, University of Puerto Rico, San Juan
Jeramia Ory, St. Louis College of Pharmacy
Jason Pell, Michigan State University
Charles Pepe-Ranney, Cornell University
Zachary N. Russ, University of California, Berkeley
Erich Schwarz, Cornell University
Camille Scott, Michigan State University
Josiah Seaman, Newline Technical Innovations
Scott Sievert, University of Minnesota
Jared Simpson, University of Toronto
Connor T. Skennerton, California Institute of Technology
James Spencer, Imperial College London
Ramakrishnan Srinivasan, Icahn School of Medicine at Mount Sinai
Daniel S. Standage, Iowa State UniversityFollow
James A. Stapleton, Michigan State University
Susan R. Steinman, Mount Sinai Hospital Medical Center
Joe Stein
Benjamin Taylor, Michigan State University
Will Tremble, Argonne National Laboratory
Heather L. Wiencko, Trinity College Dublin
Michael Wright, Michigan State University
Brian Wyss, Michigan State University
Qingpeng Zhang, Michigan State University
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C. Titus Brown, Michigan State University

Campus Units

Agricultural and Biosystems Engineering, Bioinformatics and Computational Biology

Document Type

Article

Publication Version

Published Version

Publication Date

9-25-2015

Journal or Book Title

F1000Research

Volume

4

First Page

900

Research Focus Area(s)

Land and Water Resources Engineering

DOI

10.12688/f1000research.6924.1

Abstract

The khmer package is a freely available software library for working efficiently with fixed length DNA words, or k-mers. khmer provides implementations of a probabilistic k-mer counting data structure, a compressible De Bruijn graph representation, De Bruijn graph partitioning, and digital normalization. khmer is implemented in C++ and Python, and is freely available under the BSD license at https://github.com/dib-lab/khmer/.

Comments

This article is from F1000Research 2015, 4:900 (doi:10.12688/f1000research.6924.1). Posted with permission.

Rights

© 2015 Crusoe MR et al. This is an open access article distributed under the terms of the Creative Commons Attribution Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Copyright Owner

Crusoe MR et al

Language

en

File Format

application/pdf