Multiple Sequence Alignment


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Documentation for package ‘msa’ version 1.0.2

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msa-package Multiple Sequence Alignment
class:MsaAAMultipleAlignment Classes 'MsaAAMultipleAlignment', 'MsaDNAMultipleAlignment', and 'MsaRNAMultipleAlignment'
class:MsaDNAMultipleAlignment Classes 'MsaAAMultipleAlignment', 'MsaDNAMultipleAlignment', and 'MsaRNAMultipleAlignment'
class:MsaMetaData Class 'MsaMetaData'
class:MsaRNAMultipleAlignment Classes 'MsaAAMultipleAlignment', 'MsaDNAMultipleAlignment', and 'MsaRNAMultipleAlignment'
msa Unified interface to multiple sequence alignment algorithms
MsaAAMultipleAlignment Classes 'MsaAAMultipleAlignment', 'MsaDNAMultipleAlignment', and 'MsaRNAMultipleAlignment'
MsaAAMultipleAlignment-class Classes 'MsaAAMultipleAlignment', 'MsaDNAMultipleAlignment', and 'MsaRNAMultipleAlignment'
msaClustalOmega Multiple Sequence Alignment with ClustalOmega
msaClustalW Multiple Sequence Alignment with ClustalW
MsaDNAMultipleAlignment Classes 'MsaAAMultipleAlignment', 'MsaDNAMultipleAlignment', and 'MsaRNAMultipleAlignment'
MsaDNAMultipleAlignment-class Classes 'MsaAAMultipleAlignment', 'MsaDNAMultipleAlignment', and 'MsaRNAMultipleAlignment'
MsaMetaData Class 'MsaMetaData'
MsaMetaData-class Class 'MsaMetaData'
msaMuscle Multiple Sequence Alignment with MUSCLE
msaPackage Multiple Sequence Alignment
msaPrettyPrint Pretty-Printing of Multiple Sequence Alignments
MsaRNAMultipleAlignment Classes 'MsaAAMultipleAlignment', 'MsaDNAMultipleAlignment', and 'MsaRNAMultipleAlignment'
MsaRNAMultipleAlignment-class Classes 'MsaAAMultipleAlignment', 'MsaDNAMultipleAlignment', and 'MsaRNAMultipleAlignment'
params-method Class 'MsaMetaData'
params-method Classes 'MsaAAMultipleAlignment', 'MsaDNAMultipleAlignment', and 'MsaRNAMultipleAlignment'
print-method Classes 'MsaAAMultipleAlignment', 'MsaDNAMultipleAlignment', and 'MsaRNAMultipleAlignment'
show-method Classes 'MsaAAMultipleAlignment', 'MsaDNAMultipleAlignment', and 'MsaRNAMultipleAlignment'
version Class 'MsaMetaData'
version-method Class 'MsaMetaData'
version-method Classes 'MsaAAMultipleAlignment', 'MsaDNAMultipleAlignment', and 'MsaRNAMultipleAlignment'