Visualize sequences in (modified) logo plots. The design choices used by these logo plots allow sequencing data to be more easily analyzed. Because it is integrated into the 'ggplot2' geom framework, these logo plots support native features such as faceting.
|Author||Heike Hofmann [aut], Eric Hare [aut, cre], GGobi Foundation [aut]|
|Date of publication||2016-06-29 02:44:46|
|Maintainer||Eric Hare <email@example.com>|
aacids: properties of amino acids
alphabet: alphabet polygon data
calcInformation: Compute shannon information based on position and treatment
createPolygons: Create a data set of polygons for a set of letters from a...
determineOrder: Determine order in which to pass through a set of points
fortify: Convert image matrix to a data frame
geom_logo: Sequence logo plots.
getOutline: Determine boundary between foreground and background in an...
ggfortify: Convert sequence data to a format suitable for logo plots
identifyParts: Identify different parts of a polygon
letterObject: Convert a text element into an R object
letterToPolygon: Convert an image file to a polygon
logo: Logo plot
mainPlusIslands: Set the orientation of a polygon
point_line_dist: Distance between point and line
position_logo: Logo positioning for overlapping objects on top of one...
sequences: peptide sequence data
simplifyPolygon: Douglas-Peucker algorithm adjusted fo polyons
simplify_rec: Douglas Pecker algorithm for line thinning
splitSequence: Reshape data set according to elements in sequences
stat_logo: Calculation of all pieces necessary to plot a logo sequence...