ifcb_volume_analyzed: Estimate Volume Analyzed from IFCB Header File

In iRfcb: Tools for Managing Imaging FlowCytobot (IFCB) Data

Estimate Volume Analyzed from IFCB Header File

Description

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

## Not run: 
# 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)

## End(Not run)

iRfcb documentation built on April 16, 2025, 1:09 a.m.