R4RNA-package | An R package for RNA visualization and analysis |
alignmentCanonical | Compute statistics for a multiple sequence alignments |
alignmentConservation | Compute statistics for a multiple sequence alignments |
alignmentCovariation | Compute statistics for a multiple sequence alignments |
alignmentPercentGaps | Compute statistics for a multiple sequence alignments |
as.helix | Coerce to a Helix Data Frame |
baseConservation | Compute statistics for a multiple sequence alignments |
basepairCanonical | Compute statistics for a multiple sequence alignments |
basepairConservation | Compute statistics for a multiple sequence alignments |
basepairCovariation | Compute statistics for a multiple sequence alignments |
basepairFrequency | Calculates the frequency of each basepair |
blankPlot | Create a blank plotting canvas |
collapseHelix | Expand or collapse helices to and from basepairs |
colourByBasepairFrequency | Assign colours to helices |
colourByCanonical | Assign colours to helices |
colourByConservation | Assign colours to helices |
colourByCount | Assign colours to helices |
colourByCovariation | Assign colours to helices |
colourByUnknottedGroups | Assign colours to helices |
colourByValue | Assign colours to helices |
defaultPalette | Assign colours to helices |
expandHelix | Expand or collapse helices to and from basepairs |
fasta | Helices predicted by TRANSAT with p-values |
helix | Helices predicted by TRANSAT with p-values |
helixCanonical | Compute statistics for a multiple sequence alignments |
helixConservation | Compute statistics for a multiple sequence alignments |
helixCovariation | Compute statistics for a multiple sequence alignments |
helixToBpseq | Convert helix structures to and from other formats |
helixToConnect | Convert helix structures to and from other formats |
helixToVienna | Convert helix structures to and from other formats |
is.helix | Coerce to a Helix Data Frame |
isConflictingHelix | Logical filters of helix by type |
isDuplicatingHelix | Logical filters of helix by type |
isOverlappingHelix | Logical filters of helix by type |
known | Helices predicted by TRANSAT with p-values |
logceiling | Log base 10 sequence, floor and ceiling |
logfloor | Log base 10 sequence, floor and ceiling |
logseq | Log base 10 sequence, floor and ceiling |
maxHeight | Create a blank plotting canvas |
parseBracket | Coerce to a Helix Data Frame |
plotArc | Plots helices in arc diagram |
plotArcs | Plots helices in arc diagram |
plotCovariance | Plot nucleotide sequence coloured by covariance |
plotDoubleCovariance | Plot nucleotide sequence coloured by covariance |
plotDoubleHelix | Plots helices in arc diagram |
plotHelix | Plots helices in arc diagram |
plotOverlapCovariance | Plot nucleotide sequence coloured by covariance |
plotOverlapHelix | Plots helices in arc diagram |
R4RNA | An R package for RNA visualization and analysis |
readBpseq | Read secondary structure file |
readConnect | Read secondary structure file |
readHelix | Read secondary structure file |
readVienna | Read secondary structure file |
structureMismatchScore | Scores how a basepair structure fits a sequence |
unknottedGroups | Partition basepairs into unknotted groups |
viennaToHelix | Convert helix structures to and from other formats |
writeHelix | Write out a helix data frame into a text file |