To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SwimR")

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

SwimR

   

This package is for version 3.1 of Bioconductor; for the stable, up-to-date release version, see SwimR.

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

Bioconductor version: 3.1

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:

## try http:// if https:// URLs are not supported
source("https://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 1.6.0
In Bioconductor since BioC 2.13 (R-3.0) (2.5 years)
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
LinkingTo
Suggests
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source SwimR_1.6.0.tar.gz
Windows Binary SwimR_1.6.0.zip
Mac OS X 10.6 (Snow Leopard) SwimR_1.6.0.tgz
Mac OS X 10.9 (Mavericks) SwimR_1.6.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/SwimR/tree/release-3.1
Package Short Url http://bioconductor.org/packages/SwimR/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

Fred Hutchinson Cancer Research Center