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Estimate Volume Analyzed from IFCB Header File

Source: R/ifcb_volume_analyzed.R
ifcb_volume_analyzed.Rd

This function reads an IFCB header file to extract sample run time and inhibittime, and returns the associated estimate of sample volume analyzed (in milliliters). The function assumes a standard IFCB configuration with a sample syringe operating at 0.25 mL per minute. For IFCB instruments after 007 and higher (except 008). This is the R equivalent function of IFCB_volume_analyzed from the ifcb-analysis repository (Sosik and Olson 2007).

Usage

ifcb_volume_analyzed(hdr_file, hdrOnly_flag = FALSE, flowrate = 0.25)

Arguments

hdr_file

A character vector specifying the path(s) to one or more .hdr files or URLs.

hdrOnly_flag

An optional flag indicating whether to skip ADC file estimation (default is FALSE).

flowrate

Milliliters per minute for syringe pump (default is 0.25).

Value

A numeric vector containing the estimated sample volume analyzed for each header file.

References

Sosik, H. M. and Olson, R. J. (2007), Automated taxonomic classification of phytoplankton sampled with imaging-in-flow cytometry. Limnol. Oceanogr: Methods 5, 204–216.

See also

https://github.com/hsosik/ifcb-analysis

Examples

if (FALSE) { # \dontrun{
# Example: Estimate volume analyzed from an IFCB header file
hdr_file <- "path/to/IFCB_hdr_file.hdr"
ml_analyzed <- ifcb_volume_analyzed(hdr_file)
print(ml_analyzed)
} # }