ceas

Cellular Energetics Analysis Software

Description

Measuring cellular energetics is essential to understanding a matrix’s (e.g. cell, tissue or biofluid) metabolic state. The Agilent Seahorse machine is a common method to measure real-time cellular energetics, but existing analysis tools are highly manual or lack functionality. The Cellular Energetics Analysis Software (ceas) R package fills this analytical gap by providing modular and automated Seahorse data analysis and visualization using the methods described byMookerjee et al. (2017).

Pronunciation

‘ceas’ is pronounced like the word ‘seas’ (siːz, SEEZ).

Installation

CRAN

install.packages("ceas")

Github

You can install the release or development versions from GitHub by cloning the repo. The code on themain branch is in sync with the CRAN releases while thedev branch has the latest updates. Documentation for the dev branch can be found on thedev page of the website (/dev).

git clone https://github.com/jamespeapen/ceas/git clone-b dev https://github.com/jamespeapen/ceas/# dev versionR CMD INSTALL ceas

You can also use the Rdevtools package:

devtools::install_github("jamespeapen/ceas")devtools::install_github("jamespeapen/ceas", ref="dev")# dev version

orpak:

pak::pkg_install("jamespeapen/ceas")pak::pkg_install("jamespeapen/ceas@dev")# dev version

Usage

A user guide is available on thepackage website. Bug reports may be submitted throughGitHub issues.

Citation

If you useceas please cite

Rachel (Rae) J House, James P Eapen, Hui Shen, Carrie R Graveel, Matthew R Steensma (2024). ceas: An R package for Seahorse data analysis and visualization, Bioinformatics, 40(8), btae503