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Estimate Volume Analyzed from IFCB ADC File

Source: R/ifcb_volume_analyzed_from_adc.R
ifcb_volume_analyzed_from_adc.Rd

This function reads an IFCB ADC 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_fromADC from the ifcb-analysis repository (Sosik and Olson 2007).

Usage

ifcb_volume_analyzed_from_adc(adc_file)

Arguments

adc_file

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

Value

A list containing:

  • ml_analyzed: A numeric vector of estimated sample volume analyzed for each ADC file.

  • inhibittime: A numeric vector of inhibittime values extracted from ADC files.

  • runtime: A numeric vector of runtime values extracted from ADC files.

A value is NA when it cannot be derived from the file, for example when the ADC lacks the run/inhibit time columns (with a warning) or records no nonzero inhibit time, matching the NaN the MATLAB reference returns in those cases.

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 ADC file
adc_file <- "path/to/IFCB_adc_file.adc"
adc_info <- ifcb_volume_analyzed_from_adc(adc_file)
print(adc_info$ml_analyzed)
} # }