alignCoord | Alignment of secondary structure folds to 2 nucleotides. |
aptPlotCT | RNA secondary structure plotting from CT files |
backward | Internal function for moving through secondary structures |
bplfile | Creates a bpl file from a coordinate file |
circleCoord | Internal function for finding the coordinates of NT's in a... |
ct2coord | Generate coordinate file |
ct2knet | creates a knet file from a CT file |
forward | Internal function for moving through secondary structures |
genCords | Internal function that generates coordinates for a given loop... |
loadCoords | Loads a coordinate file into a data frame |
loadCt | Loads a CT file into an R data frame |
loopLength | internal function that determines the length of a loop |
makeCt | make a CT file from a structure and sequence |
pseudoKnot | removes pseudoknots from a ct file |
RNAPlot | Generic RNA Secondary Structure Plotting Function |
rotateS | Internal function to rotate a single point |
rotateV | internal function to rotate a vector of points |
RRNA-package | RNA secondary structure ploting |
stemCords | internal function that generates coordinates for a stem |
transformFold | Internal function to translate and rotate a secondary... |
translate | internal function for translating points |
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