concentration_category: Binned concentrations

In Echisholm21/vprr: Processing and Visualization of Video Plankton Recorder Data

Binned concentrations

Description

This function produces depth binned concentrations for a specified category. Similar to bin_cast but calculates concentrations for only one category. Used inside vpr_roi_concentration

Usage

concentration_category(
  data,
  category,
  binSize,
  imageVolume,
  rev = FALSE,
  breaks = NULL,
  cutoff = 0.1
)

Arguments

data	dataframe produced by processing internal to vpr_roi_concentration
category	name of category isolated
binSize	passed to bin_calculate, determines size of depth bins over which data is averaged
imageVolume	the volume of VPR images used for calculating concentrations (mm^3)
rev	Logical value defining direction of binning, FALSE - bins will be calculated from surface to bottom, TRUE- bins will be calculated bottom to surface
breaks	Argument passed to ctdFindProfiles
cutoff	Argument passed to ctdFindProfiles

Details

Image volume calculations can change based on optical setting of VPR as well as autodeck setting used to process images For IML2018051 (S2) image volume was calculated as 108155 mm^3 by seascan (6.6 cubic inches) For COR2019002 S2 image volume was calculated as 83663 mm^3 and S3 image volume was calculated as 366082 mm^3

Author(s)

E. Chisholm

Echisholm21/vprr documentation built on Feb. 9, 2025, 4:21 p.m.