respirometry: Tools for Conducting Respirometry Experiments

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Provides tools to enable the researcher to more precisely conduct respirometry experiments. Strong emphasis is on aquatic respirometry. Tools focus on helping the researcher setup and conduct experiments. Analysis of the resulting data is not a focus since analyses are often specific to a particular setup, and thus are better created by the researcher individually. This package provides tools for intermittent, flow-through, and closed respirometry techniques.

Author
Matthew A. Birk
Date of publication
2016-11-30 09:10:59
Maintainer
Matthew A. Birk <matthewabirk@gmail.com>
License
GPL-3
Version
0.3.0

View on CRAN

Man pages

calc_b
Calculate the metabolic scaling coefficient, b
calc_MO2
Calculate metabolic rate
closed
Closed respirometry
co2_add
Calculate CO2 to add to water
co2_flush
Calculate CO2 to add to flush reservoir
co2_rate
Calculate CO2 to add to a respirometer intake flow
conv_NH4
Convert between units of ammonium
conv_o2
Convert between units of oxygen partial pressure and...
conv_resp_unit
Convert units related to respirometry
correct_bubble
Adjust respirometer volume for bubbles
flush_carb
Estimate carbonate chemistry after a flush
flush_o2
Estimate dissolved O2 after a flush
flush_water
Find percent of water exchanged after a flush
goal_flush_pH
Calculate goal pH of a flush reservoir to achieve the...
guess_TA
Estimate total alkalinity from salinity
guess_when
Estimate when the O2 level will reach a defined level
import_firesting
Import data from a FireSting O2 transmitter
import_presens
Import data from a PreSens O2 transmitter
import_witrox
Import data from a Loligo Systems Witrox O2 transmitter
max_MO2
Maximum MO2 supported by flow rate
mean_pH
Mean pH by [H+]
min_flow
Minimum flow rate to support MO2
peri_pump
Calculate peristaltic pump gaseous flow rate
predict_NH4
Predict NH4 concentration post-respiration
predict_pH
Predict pH post-respiration
Q10
Parameters of Q10 Temperature Coefficient
respirometry
Tools for Conducting Respirometry Experiments
RQ
Calculate respiratory quotient
scale_MO2
Scale metabolic rate by size

Files in this package

respirometry
respirometry/inst
respirometry/inst/extdata
respirometry/inst/extdata/witrox_file.txt
respirometry/inst/extdata/fibox_4_file.csv
respirometry/inst/extdata/firesting_file.txt
respirometry/inst/extdata/fibox_3_file.txt
respirometry/NAMESPACE
respirometry/NEWS
respirometry/R
respirometry/R/co2_add.R
respirometry/R/mean_pH.R
respirometry/R/min_flow.R
respirometry/R/import_presens.R
respirometry/R/flush_water.R
respirometry/R/conv_o2.R
respirometry/R/peri_pump.R
respirometry/R/conv_resp_unit.R
respirometry/R/conv_NH4.R
respirometry/R/calc_MO2.R
respirometry/R/guess_when.R
respirometry/R/correct_bubble.R
respirometry/R/guess_TA.R
respirometry/R/predict_NH4.R
respirometry/R/import_witrox.R
respirometry/R/co2_flush.R
respirometry/R/RQ.R
respirometry/R/respirometry.R
respirometry/R/goal_flush_pH.R
respirometry/R/predict_pH.R
respirometry/R/flush_o2.R
respirometry/R/co2_rate.R
respirometry/R/flush_carb.R
respirometry/R/import_firesting.R
respirometry/R/scale_MO2.R
respirometry/R/calc_b.R
respirometry/R/Q10.R
respirometry/R/closed.R
respirometry/R/max_MO2.R
respirometry/MD5
respirometry/DESCRIPTION
respirometry/man
respirometry/man/mean_pH.Rd
respirometry/man/co2_rate.Rd
respirometry/man/conv_NH4.Rd
respirometry/man/max_MO2.Rd
respirometry/man/conv_o2.Rd
respirometry/man/import_witrox.Rd
respirometry/man/correct_bubble.Rd
respirometry/man/import_presens.Rd
respirometry/man/closed.Rd
respirometry/man/calc_b.Rd
respirometry/man/guess_TA.Rd
respirometry/man/flush_o2.Rd
respirometry/man/import_firesting.Rd
respirometry/man/min_flow.Rd
respirometry/man/co2_flush.Rd
respirometry/man/scale_MO2.Rd
respirometry/man/flush_carb.Rd
respirometry/man/respirometry.Rd
respirometry/man/goal_flush_pH.Rd
respirometry/man/predict_NH4.Rd
respirometry/man/flush_water.Rd
respirometry/man/peri_pump.Rd
respirometry/man/RQ.Rd
respirometry/man/guess_when.Rd
respirometry/man/co2_add.Rd
respirometry/man/predict_pH.Rd
respirometry/man/conv_resp_unit.Rd
respirometry/man/calc_MO2.Rd
respirometry/man/Q10.Rd