DOI: 10.18129/B9.bioc.SwimR    

This package is for version 3.13 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: 3.13

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")):


To install this package, start R (version "4.1") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


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



PDF R Script SwimR
PDF   Reference Manual


biocViews Software, Visualization
Version 1.29.0
In Bioconductor since BioC 2.13 (R-3.0) (8 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
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package SwimR_1.29.0.tar.gz
Windows Binary SwimR_1.29.0.zip (32- & 64-bit)
macOS 10.13 (High Sierra) SwimR_1.29.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/SwimR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/SwimR
Package Short Url https://bioconductor.org/packages/SwimR/
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

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