R Graphical Manual

Browse All

Last data update: 2014.03.03

R: Loading cluster information

load_clusters

R Documentation

Loading cluster information

Description

This function loads clusters from a plain text file and stores them in a matrix. The trajectories can be named by the user.

Usage

load_clusters( path,
               names = NA,
               mdEngine = "GROMOS" )

Arguments

`path`	Specifies the path of the text input file.
`names`	Optional vector of trajectory names. Needs to be of the same length as the number of clusters to be plotted.
`mdEngine`	Argument introduced for distinction between input formats based on the used molecular dynamics engine (to be implemented).

Author(s)

Christian Margreitter

Examples

# see "extdata/clusters_example.txt.gz" for format information
load_clusters( system.file( "extdata/clusters_example.txt.gz", 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.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> 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/load_clusters.Rd_%03d_medium.png", width=480, height=480)
> ### Name: load_clusters
> ### Title: Loading cluster information
> ### Aliases: load_clusters
> ### Keywords: Clusters
> 
> ### ** Examples
> 
> # see "extdata/clusters_example.txt.gz" for format information
> load_clusters( system.file( "extdata/clusters_example.txt.gz", package = "MDplot" ) )
  [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,10] [,11] [,12] [,13] [,14]
1 8539    0  175    0    0  284    0    0    0     0     0     0     0     0
2 3027 5224    0  178   62    3  370    1   65     3    10    23    10    12
3 8926    0    0    0    0   71    0    0    0     0     2     0     0     0
4 7999    0  928    0    0   37    0    0    0    35     0     0     0     0
5 2993 5064   12  390  368    7    0  106    9     0    19     0    11     3
6 8837    0  122    0    0   26    0    0    0     8     6     0     0     0
  [,15] [,16] [,17] [,18] [,19] [,20] [,21] [,22] [,23] [,24] [,25]
1     0     0     0     0     2     0     0     0     0     0     0
2     0     4     4     0     0     3     0     1     0     0     0
3     0     0     0     0     1     0     0     0     0     0     0
4     0     0     0     0     0     0     0     0     1     0     0
5    11     0     0     4     0     0     2     0     0     1     0
6     0     0     0     0     0     0     0     0     0     0     1
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>