1. msa
  2. NAMESPACE
Browse code

New functionality for computing consensus sequences and conservation scores; version number bumped to 1.7.1

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/msa@127901 bc3139a8-67e5-0310-9ffc-ced21a209358

Ulrich Bodenhofer authored on 31/03/2017 11:35:08
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NAMESPACE
History View file @ 5ad9386
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@@ -14,5 +14,5 @@ export(msa, msaMuscle, msaClustalW, msaClustalOmega, msaPrettyPrint,
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 exportClasses(MsaDNAMultipleAlignment, MsaRNAMultipleAlignment,
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               MsaAAMultipleAlignment, MsaMetaData)
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-exportMethods(params, version, show, print)
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-
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+exportMethods(params, version, show, print, msaConservationScore,
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+              msaConsensusSequence)
Browse code

Added a new function msaCheckNames; version number bumped to 1.3.4

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/msa@115880 bc3139a8-67e5-0310-9ffc-ced21a209358

Ulrich Bodenhofer authored on 06/04/2016 12:24:49
Showing 1 changed files
NAMESPACE
History View file @ faf12a4
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@@ -7,9 +7,10 @@ import(Biostrings)
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 import(S4Vectors)
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 import(IRanges)
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 importFrom(tools, texi2dvi)
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+importFrom(utils, capture.output)
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 export(msa, msaMuscle, msaClustalW, msaClustalOmega, msaPrettyPrint,
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-       msaConvert)
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+       msaConvert, msaCheckNames)
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 exportClasses(MsaDNAMultipleAlignment, MsaRNAMultipleAlignment,
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               MsaAAMultipleAlignment, MsaMetaData)
Browse code

added new conversion tools; version number bumped to 1.3.3

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/msa@114012 bc3139a8-67e5-0310-9ffc-ced21a209358

Ulrich Bodenhofer authored on 25/02/2016 15:23:41
Showing 1 changed files
NAMESPACE
History View file @ 8db2d6e
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@@ -8,8 +8,10 @@ import(S4Vectors)
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 import(IRanges)
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 importFrom(tools, texi2dvi)
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-export(msa, msaMuscle, msaClustalW, msaClustalOmega, msaPrettyPrint)
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+export(msa, msaMuscle, msaClustalW, msaClustalOmega, msaPrettyPrint,
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+       msaConvert)
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 exportClasses(MsaDNAMultipleAlignment, MsaRNAMultipleAlignment,
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               MsaAAMultipleAlignment, MsaMetaData)
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 exportMethods(params, version, show, print)
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+
Browse code

add package to the repository

msa


git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/msa@102253 bc3139a8-67e5-0310-9ffc-ced21a209358

Sonali Arora authored on 10/04/2015 00:12:33
Showing 1 changed files
NAMESPACE
History View file @ dafeef0
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new file mode 100644
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@@ -0,0 +1,15 @@
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+useDynLib(msa)
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+
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+import(methods)
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+import(Rcpp)
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+import(BiocGenerics)
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+import(Biostrings)
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+import(S4Vectors)
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+import(IRanges)
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+importFrom(tools, texi2dvi)
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+
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+export(msa, msaMuscle, msaClustalW, msaClustalOmega, msaPrettyPrint)
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+
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+exportClasses(MsaDNAMultipleAlignment, MsaRNAMultipleAlignment,
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+              MsaAAMultipleAlignment, MsaMetaData)
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+exportMethods(params, version, show, print)