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PMID: 19654119 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't

ShortRead: a bioconductor package for input, quality assessment and exploration of high-throughput sequence data.

Bioinformatics (Oxford, England) ·Vol. 25 ·No. 19 ·2009-10-01 ·Pages 2607-8

Morgan M, Anders S, Lawrence M, Aboyoun P, Pagès H, Gentleman R

Abstract

ShortRead is a package for input, quality assessment, manipulation and output of high-throughput sequencing data. ShortRead is provided in the R and Bioconductor environments, allowing ready access to additional facilities for advanced statistical analysis, data transformation, visualization and integration with diverse genomic resources. This package is implemented in R and available at the Bioconductor web site; the package contains a 'vignette' outlining typical work flows.

MeSH Terms
Computational Biology/methods Databases, Genetic Gene Expression Profiling Sequence Analysis, DNA/methods Software
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
Morgan Martin
Program in Computational Biology, Fred Hutchinson Cancer Research Center, Seattle, WA, USA. mtmorgan@fhcrc.org
Anders Simon
Lawrence Michael
Aboyoun Patrick
Pagès Hervé
Gentleman Robert
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9 references, click to expand
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Article Info
Journal
Bioinformatics (Oxford, England)
Abbr.
Bioinformatics
ISSN
1367-4811
DOI
10.1093/bioinformatics/btp450
Email
mtmorgan@fhcrc.org
Published
2009-10-01
Epub
2009-00-03
Pages
2607-8
Language
English
Region
England
NLM ID
9808944
PMCID
PMC2752612
Subset
IM
Grants
NHGRI NIH HHS · P41 HG004059 · United States
NHGRI NIH HHS · P41HG004059 · United States
External Links
PubMed source DOI: 10.1093/bioinformatics/btp450 PMC Full Text View journal details
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