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43 lines
1.7 KiB
43 lines
1.7 KiB
% Generated by roxygen2 (4.1.1): do not edit by hand
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% Please edit documentation in R/slope.analysis.R
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\name{check.slopes}
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\alias{check.slopes}
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\title{Use slope estimates to check growth curves for tanking and OD jumps #}
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\usage{
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check.slopes(input.well, check.start = 22, fall.cutoff = -0.0025,
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remove.jumps = F, jump.multipliers = -c(15, 500, 10), tank.cutoff = 1,
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tank.limit = 6, silent = T, draw = T)
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}
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\arguments{
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\item{input.well}{object of class \code{well} to check the slopes for}
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\item{check.start}{which timepoint should checking for jumps and tanking start at? this is included because early timepoints can be unstable.}
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\item{fall.cutoff}{what downward slope should constitute a fall in OD?}
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\item{remove.jumps}{should the program remove OD jumps? default F (just report them) -
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should be set to T if data contains distinct jumps in OD that need to be eliminated
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otherwise, this might be too stringent and will result in loss of data.}
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\item{jump.multipliers}{multipliers of fall.cutoff that determine whether a curve jumps up or down (see methods 1 and 2, below)}
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\item{tank.cutoff}{what proportion of the maximum OD can the curve go below until it is considered tanking?}
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\item{tank.limit}{how many timepoints in a row can have falling slopes until the curve is marked as tanking?}
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\item{silent}{output to R console?}
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\item{draw}{plot growth curve with curve checking details?}
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}
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\description{
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Use slope estimates to check growth curves for tanking and OD jumps #
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}
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\details{
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Uses the functions <data.from> and <well.name> (see well.class.R)
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Fills the "curve.par" slot in the well with the starting index of tanking (NA if none is found)
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Changed default values to parameters to account for settling
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}
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