Dataset: limpet R-code and images

Name: Respiration chamber images and R-code for analysis of size measurements and derived respiration rates from experiments conducted at Hopkins Marine Station in 2013 (Experiments in a Model Ecosystem project)
Published: 2015-12-23
Keywords: biota, oceans

Cite This Dataset

Project:

Environmental Variability, Functional Redundancy, and the Maintenance of Ecological Processes: Experiments in a Model Ecosystem (Experiments in a Model Ecosystem)

Principal Investigator:

Dr Mark W Denny (Stanford University - Hopkins, Stanford-HMS)

Co-Principal Investigator:

Dr Bengt J Allen (California State University Long Beach, CSULB)

Contact:

Luke P. Miller (Stanford University - Hopkins, Stanford-HMS)

BCO-DMO Data Manager:

Nancy Copley (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

2015-12-23

Version Date:

2015-12-23

Validated:

Yes

Current State:

Final no updates expected

Respiration chamber images and R-code for analysis of size measurements and derived respiration rates from experiments conducted at Hopkins Marine Station in 2013 (Experiments in a Model Ecosystem project)

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Description

This dataset provides links to images of the respiration chamber used in the other datasets for this project and also an example of the R-code used to analyze the limpet mass and body volume data.

Growth data for animals on experimental plates in the field during 2013 was collected monthly via digital photographs and measured using ImageJ software. Respiration of limpets collected from the field during summer 2013 was measured in air or seawater at a range of temperatures for one hour or two hours.

Related Reference:

Miller, L.P., B.J. Allen, F.A. King, D.R. Chilin, V.M. Reynoso and M.W. Denny (2015). Warm microhabitats drive both increased respiration and growth rates of intertidal consumers. Marine Ecology Progress Series 522: 127-143 doi: http://dx.doi.org/10.3354/meps11117

These data are also available at the Stanford Digital Repository: https://purl.stanford.edu/mz343tz6255

Download R code: 2013_limpet_mass_analysis.R

Related Datasets (includes metadata)	Download original data files
limpet mass and body volume	2013_limpet_mass_master.csv
limpet aquatic respiration	2013_summer_aquatic_respiration_rates.csv
limpet aerial respiration	2013_summer_aerial_respiration_rates.csv

Methods & Sampling

Oxygen measurements taken using Ocean Optics FOXY fluorescence-based optode. Limpet mass data for all measured animals is included. Detailed methodology is available in Miller et al (2015).

Data Processing Description

Growth measurements were made by analyzing limpet shell projected area in ImageJ. Limpet respiration time series were used to estimate oxygen consumption rate. Complete analysis for size measurements and derived respiration rates are provided in the attached R code.

Data Files

File
R_code_photos.csv (Comma Separated Values (.csv), 1.64 KB) MD5:81c144f4c90bddb1d4fa7009f9914ce4 Primary data file for dataset ID 630140

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1131038
NSF Division of Ocean Sciences	OCE-1130095

Deployments

Deployment	Synonyms	Start Date	Platform	Investigator
Denny_2013		2013-01-01	Hopkins Marine Station	Dr Mark W Denny (Principal Investigator)	data info

Instruments

None available yet

Parameters

Date and time formats are described in python strftime() syntax.

Supplied Name	Supplied description	Supplied Units	Standard Name
description	description of the file	unitless	brief_desc
file_link	link to file for download	unitless	file_link

Status message

Database

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Dataset: limpet R-code and images