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.. khmer documentation master file, created by
sphinx-quickstart on Wed Aug 4 10:20:23 2010.
You can adapt this file completely to your liking, but it should at least
contain the root `toctree` directive.
khmer -- k-mer counting & filtering FTW
=======================================
:Authors: Michael R. Crusoe, Greg Edvenson, Jordan Fish, Adina Howe,
Luiz Irber, Eric McDonald, Joshua Nahum, Kaben Nanlohy, Humberto
Ortiz-Zuazaga, Jason Pell, Jared Simpson, Camille Scott, Ramakrishnan
Rajaram Srinivasan, Qingpeng Zhang, and C. Titus Brown
:Contact: khmer-project@idyll.org
:License: BSD
khmer is a library and suite of command line tools for working with
DNA sequence. It is primarily aimed at short-read sequencing data
such as that produced by the Illumina platform. khmer takes a k-mer-centric
approach to sequence analysis, hence the name.
:doc:`user/install`
There are two mailing lists dedicated to khmer, an announcements-only list and
a discussion list. To search their archives and sign-up for them, please visit
the following URLs:
* Discussion: http://lists.idyll.org/listinfo/khmer
* Announcements: http://lists.idyll.org/listinfo/khmer-announce
The archives for the khmer list are available at: http://lists.idyll.org/pipermail/khmer/
khmer development has largely been supported by AFRI Competitive Grant
no. `2010-65205-20361
<http://ged.msu.edu/downloads/2009-usda-vertex.pdf>`__ from the USDA
NIFA, and is now funded by the National Human Genome Research
Institute of the National Institutes of Health under Award Number
`R01HG007513 <http://ged.msu.edu/downloads/2012-bigdata-nsf.pdf>`__ through
May 2016, both to C. Titus Brown.
Contents:
.. toctree::
:maxdepth: 1
introduction
contributors
citations
user/index
dev/index
roadmap
LICENSE