read_gfs {gasanalyzer}

Reads GFS-3000 text files and creates a tibble with gas-exchange data

Description

The text files stored by the GFS-3000 contain measured and calculated values that are read by this function and formatted in a large tibble for use with R. Note that no recalculation of derived variables is performed, although it is possible to do so using recalculate() after importing the data.

Usage

read_gfs(
  filename,
  tz = Sys.timezone(),
  unified_names = TRUE,
  skip_to_data = 2,
  delim = ";"
)

Arguments

filename

an xlsx file containing 6800 gas-exchange data.

tz

a character string specifying the timezone for the loaded file. If omitted, the current time zone is used. Invalid values are typically treated as UTC, on some platforms with a warning.

unified_names

= TRUE, use unified column names. This is necessary for further processing of the data using this package.

skip_to_data

use skip=4 if the file has a double header.

delim

= ";" Allows specified the delimiter used in the files. Re-saved data may use a comma as delimiter.

Details

Multiple files can be loaded by calling the function with lapply() or purrr::map() to merge multiple files. In this case, it is important to ensure that the column names will match.

Value

a tibble with gas-exchange data in columns and equations as attribute.

See Also

recalculate()

Examples

example <- system.file("extdata", "aci1.csv", package = "gasanalyzer")

# Read using GFS-3000 names and formatting:
gfs3000_old <- read_gfs(example, unified_names = FALSE)
# Read using unified column names:
gfs3000 <- read_gfs(example)

# Inspect the intercellular CO2:
gfs3000_old$ci
gfs3000$GasEx.Ci

# Recalculate data using default gas exchange equations:
gfs3000 <- recalculate(gfs3000, create_equations(c("default", "gfs3000")))
gfs3000$GasEx.Ci