FishResp: R package for Aquatic Respirometry

Description

The R package 'FishResp' is designed to calculate metabolic rate of aquatic organisms measured using an intermittent-flow respirometry approach. Raw respirometry data can be imported from:

• PumpResp (open-source pump controller by FishResp)
• SensResp (open-source DO meter by FishResp).
• AutoResp (by LoligoSystems)
• Pyro Oxygen Logger (by PyroScience)
• OxyView (by PreSens)
• AquaResp (free software)
• Q-box Aqua (by QubitSystems)

The idea behind FishResp, an analysis pipeline and case studies are described in the academic publication by Morozov et al. (2019). Technical information about R functions and demo data can be found in Reference Manual. Brief descriptions of the R package 'FishResp' and other open-source tools for aquatic respirometry are located at the website fishresp.org.

Installation

The stable version of the ‘FishResp’ package can be installed from CRAN:install.packages("FishResp").

Alternativelly, download the latest release from GitHub and install using the following command: devtools::install_github("embedded-sergey/FishResp-Rpackage@*release").

If you are not familiar with the R language, please check out the graphical implementation of the R package: FishRespGUI.

Notes

To cite FishResp please refer to: "Morozov, S., McCairns, R.J.S., Merila, J. (2019) FishResp: R package and GUI application for analysis of aquatic respirometry data. Conserv Physiol 7(1): coz003; https://doi.org/10.1093/conphys/coz003".

To see the list of changes made in various versions of the R package, open the file 'NEWS.md'.

If you find a bug, please report about it on the FishResp forum or the GitHub repository.

People and organisations who developed, contributed or financed the ‘FishResp’ project are listed here.