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Package: msa
Type: Package
Title: Multiple Sequence Alignment
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Version: 1.0.0
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Date: 2015-04-16
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Author: Enrico Bonatesta, Christoph Horejs-Kainrath, Ulrich Bodenhofer
Maintainer: Ulrich Bodenhofer <bodenhofer@bioinf.jku.at>
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Description: This package provides a unified R/Bioconductor interface to the
multiple sequence alignment algorithms ClustalW, ClustalOmega,
and Muscle. All three algorithms are integrated in the package,
therefore, they do not depend on any external software tools
and are available for all major platforms. The multiple sequence
alignment algorithms are complemented by a function for
pretty-printing multiple sequence alignments using the LaTeX
package TeXshade.
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URL: http://www.bioinf.jku.at/software/msa/
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License: GPL (>= 2)
Copyright: See file inst/COPYRIGHT
Depends: R (>= 3.1.0), methods, Biostrings (>= 2.30.0)
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Imports: Rcpp (>= 0.11.1), BiocGenerics, IRanges (>= 1.20.0), S4Vectors,
tools
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Suggests: Biobase, knitr
LinkingTo: Rcpp
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SystemRequirements:
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VignetteBuilder: knitr
LazyLoad: yes
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Collate: AllClasses.R AllGenerics.R params-methods.R version-methods.R
helperFunctions.R inputChecks.R convertRows.R msaPrettyPrint.R
print-methods.R show-methods.R msa.R msaMuscle.R msaClustalW.R
msaClustalOmega.R
biocViews: MultipleSequenceAlignment, Alignment, MultipleComparison, Sequencing
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