bs4_nc: gates out or assign indicators to Synechococcus cyanobacteria...
In cyanoFilter: Cyanobacteria Population Identification for Flow Cytometry

Description Usage Arguments Details Value See Also

This function takes in a flowframe with debris removed and identifies Synechococcus cyanobacteria cell population in the provided frame.

1	bs4_nc(bs4bs5, p1, p2, others, to_retain = c("refined", "potential"))

`bs4bs5`	flowframe with debris (left) removed.
`p1`	first flowcytometer channel that can be used to separate cells of interest from the rest, e.g. "RED.B.HLin".
`p2`	second flowcytometer channel that can be used to separate cells of interest from the rest, e.g. "YEL.B.HLin"
`others`	row numbers for non-debris events. This is provided by the `debris_nc` or `debris_inc` function.
`to_retain`	should potential candidates be retained or further gating be applied to filter out only certain Synechococcus cyanobacteria cells.

The function uses the getPeaks and deGate functions in the flowDensity package to identify peaks and identify cut-off points between these peaks. This function is not designed to be called in isolation, if called in isolation an error will be returned. It is preferably called on the results from debris_nc or debris_inc function. A graph with horizontal and vertical lines used in separating the populations is returned and if to_retain = "refined", a circle made of dashed lines is drawn around Synechococcus cyanobacteria cell population points.

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