To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("SwimR")

In most cases, you don't need to download the package archive at all.

SwimR

SwimR: A Suite of Analytical Tools for Quantification of C. elegans Swimming Behavior

Bioconductor version: Release (2.14)

SwimR is an R-based suite that calculates, analyses, and plots the frequency of C. elegans swimming behavior over time. It places a particular emphasis on identifying paralysis and quantifying the kinetic elements of paralysis during swimming. Data is input to SwipR from a custom built program that fits a 5 point morphometric spine to videos of single worms swimming in a buffer called Worm Tracker.

Author: Jing Wang <jing.wang.2 at vanderbilt.edu>, Andrew Hardaway <hardawayja at gmail.com> and Bing Zhang <bing.zhang at vanderbilt.edu>

Maintainer: Randy Blakely <Randy.Blakely at vanderbilt.edu>

Citation (from within R, enter citation("SwimR")):

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("SwimR")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("SwimR")

 

PDF R Script SwimR
PDF   Reference Manual

Details

biocViews Software, Visualization
Version 1.2.0
In Bioconductor since BioC 2.13 (R-3.0)
License LGPL-2
Depends R (>= 3.0.0), methods, gplots (>= 2.10.1), heatmap.plus (>= 1.3), signal (>= 0.7), R2HTML (>= 2.2.1)
Imports methods
Suggests
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source SwimR_1.2.0.tar.gz
Windows Binary SwimR_1.2.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) SwimR_1.2.0.tgz
Mac OS X 10.9 (Mavericks) SwimR_1.2.0.tgz
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