An R interface to the Rfam database


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Documentation for package ‘rfaRm’ version 1.16.0

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rfamConsensusSecondaryStructure Retrieve the secondary structure of an Rfam family
rfamCovarianceModel Get the covariance model associated to an Rfam family
rfamFamilyAccessionToID Convert an Rfam family accession to an Rfam family ID
rfamFamilyIDToAccession Convert an Rfam family ID to an Rfam family accession
rfamFamilySummary Get a summary describing an Rfam family
rfamPDBMapping Retrieve PDB entries with the 3D structure of members of an Rfam family
rfamSecondaryStructurePlot Generate a diagram of the secondary structure of an Rfam family
rfamSecondaryStructureXMLSVG Get an SVG file with a secondary structure representation of an Rfam family
rfamSeedAlignment Retrieve the seed alignment of an Rfam family
rfamSeedTree Get the phylogenetic tree of the seed multiple alignment of an Rfam family
rfamSeedTreeImage Get an image of the phylogenetic tree of the seed multiple alignment of an Rfam family
rfamSequenceRegions Retrieve all sequence regions belonging to an Rfam family
rfamSequenceSearch Performs a sequence search of the Rfam database
rfamTextSearchFamilyAccession Search the Rfam database by a given keyword