R: Tools for Conducting and Analyzing Respirometry Experiments

# Tools for Conducting and Analyzing Respirometry Experiments

## Documentation for package ‘respirometry’ version 2.0.2

- DESCRIPTION file
- Package NEWS

## Help Pages

respirometry-package | Tools for Conducting Respirometry Experiments
adj_by_temp | Predict biological parameters at a new temperature
calc_alpha | Calculate the oxygen supply capacity (alpha)
calc_b | Calculate the metabolic scaling coefficient, b
calc_E | Calculate E temperature coefficient
calc_MO2 | Calculate metabolic rate
calc_mo2 | Calculate metabolic rate
calc_pcrit | Calculate Pcrit
calc_q10 | Parameters of Q10 Temperature Coefficient
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 ammonia (NH3) / ammonium (NH4+)
conv_o2 | Convert between units of oxygen partial pressure and concentration
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 post-flush goal pCO2
guess_TA | Estimate total alkalinity from salinity
guess_when | Estimate when the O2 level will reach a defined level
import_firesting | Import data from Pyro Oxygen Logger
import_presens | Import data from a PreSens O2 transmitter
import_pyroscience_workbench | Import data from Pyroscience Workbench
import_witrox | Import data from a Loligo Systems Witrox O2 transmitter
make_bins | Make time binning thresholds for MO2 calculations
max_MO2 | Maximum MO2 supported by flow rate
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
plot_pcrit | Plot Pcrit
predict_nh3 | Predict NH3 / NH4+ concentration post-respiration
predict_pH | Predict pH post-respiration
Q10 | Parameters of Q10 Temperature Coefficient
q10 | Parameters of Q10 Temperature Coefficient
respirometry | Tools for Conducting Respirometry Experiments
RQ | Calculate respiratory quotient
scale_MO2 | Mass-correct metabolic rate
scale_mo2 | Mass-correct metabolic rate