Estimates regressions for automatically timed measurement cycles

Analyzes O~2~ and temperature data recorded continuously using repeat open(flush):closed(measure) cycles to obtain regressions representative of metabolic rates.

Usage

SMR(
  data,
  cycle_start,
  cycle_end,
  first_cycle,
  chop_start,
  chop_end,
  N_Ch = 4,
  date_format = c("%m/%d/%Y %H:%M:%S", "GMT"),
  inventory_data = NULL,
  local_path = TRUE,
  plot_temp = FALSE,
  background_data = FALSE,
  sda_data = FALSE,
  name_extensionID = "",
  drop_ch = 0
)

Arguments

data

The name of the raw input file .csv, character.

cycle_start

The stat time (min) of auto cycle. This indicates the start of the measurement (relative to min 0).

cycle_end

The time (min) of auto cycle; end of the measurement (relative to min 0)

first_cycle

whether the first cycle is a flush or metabolic rate measurement. provide either: "flush" or "measurement"

chop_start

The time (min) to be chopped off at the start of each measurement cycle

chop_end

The time (min) to be chopped off at the end of each measurement cycle

N_Ch

The number of channels of the oxygen meter. It must be either 4 or 8. 8-Channel oxygen meter has 4 temperature and 4 oxygen sensors. The microplate reader files have 4 at this step.

date_format

Common format of from the CSV conversion.

inventory_data

The inventory file (.csv file), default = NULL

local_path

Logical. If TRUE (default) all returned files will be saved in the local working directory.

plot_temp

Logical argument. Indicates whether or not temperature trends for each cycle will be plotted and saved TRUE

background_data

logical. If this datafile is a background (background respiration file), indicate TRUE

sda_data

logical. If this datafile belong to SDA analysis, is a SDA data file, indicate TRUE

name_extensionID

add identifier to the original name of the file

drop_ch

exclude channel from analysis; default = 0 (none)

Value

The output from print