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gglogo (version 0.1.5)

Geom for Logo Sequence Plots

Description

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.

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Install

install.packages('gglogo')

Monthly Downloads

41

Version

0.1.5

License

GPL-3

Issues

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Repository

https://github.com/heike/gglogo

Maintainer

Last Published

January 28th, 2020

Functions in gglogo (0.1.5)

Determine order in which to pass through a set of points

alphabet polygon data

Determine boundary between foreground and background in an image

Create a data set of polygons for a set of letters from a specified fontfamily

Convert image matrix to a data frame

Sequence logo plots.

Convert sequence data to a format suitable for logo plots

properties of amino acids

calcInformation

Compute shannon information based on position and treatment

Identify different parts of a polygon

peptide sequence data

Reshape data set according to elements in sequences

Douglas Pecker algorithm for line thinning

point_line_dist

Distance between point and line

Logo positioning for overlapping objects on top of one another.

letterToPolygon

Convert an image file to a polygon

Convert a text element into an R object

mainPlusIslands

Set the orientation of a polygon

Calculation of all pieces necessary to plot a logo sequence plot

simplifyPolygon

Douglas-Peucker algorithm adjusted fo polyons