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Last data update: 2014.03.03

R: DSSP timeseries plot for secondary structure elements...

dssp_ts

R Documentation

DSSP timeseries plot for secondary structure elements (proteins)

Description

Plots time-series for secondary structure motifs in the context of the widely used dssp algorithm. The default order is: "3-Helix", "4-Helix", "5-Helix", "Bend", "Beta-Bridge", "Beta-Strand", "Turn".

Usage

dssp_ts( tsData,
         printLegend = TRUE,
         timeBoundaries = NA,
         residueBoundaries = NA,
         timeUnit = NA,
         snapshotsPerTimeInt = 1000,
         barePlot = FALSE,
         ... )

Arguments

`tsData`	List consisting of lists, which are composed of a `name` (string) and a `values` table (x ... snapshots, y ... residues). Can be generated by `load_dssp_ts()`.
`printLegend`	If `TRUE`, a legend is printed on the right hand side of the plot.
`timeBoundaries`	A vector of boundaries for the time in snapshots.
`residueBoundaries`	A vector of boundaries for the residues.
`timeUnit`	If set, the snapshots are transformed into the respective time (depending on parameter `snapshotsPerTime`.
`snapshotsPerTimeInt`	Number of snapshots per respective `timeUnit`.
`barePlot`	Boolean, indicating whether the plot is to be made without any additional information.
`...`	Additional arguments (ellipsis).

Author(s)

Christian Margreitter

Examples

dssp_ts( load_dssp_ts( system.file( "extdata", package = "MDplot" ) ) )

Results


R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
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Type 'license()' or 'licence()' for distribution details.

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Type 'demo()' for some demos, 'help()' for on-line help, or
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> library(MDplot)
Loading required package: MASS
Loading required package: RColorBrewer
Loading required package: gplots

Attaching package: 'gplots'

The following object is masked from 'package:stats':

    lowess

Loading required package: gtools
> png(filename="/home/ddbj/snapshot/RGM3/R_CC/result/MDplot/dssp_ts.Rd_%03d_medium.png", width=480, height=480)
> ### Name: dssp_ts
> ### Title: DSSP timeseries plot for secondary structure elements (proteins)
> ### Aliases: dssp_ts
> ### Keywords: dssp
> 
> ### ** Examples
> 
> dssp_ts( load_dssp_ts( system.file( "extdata", package = "MDplot" ) ) )
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>