Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
Description
Show and extract information from
TDRcalibrate
objects.
Usage
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24  ## S4 method for signature 'TDRcalibrate,missing'
getDAct(x)
## S4 method for signature 'TDRcalibrate,character'
getDAct(x, y)
## S4 method for signature 'TDRcalibrate,missing'
getDPhaseLab(x)
## S4 method for signature 'TDRcalibrate,numeric'
getDPhaseLab(x, diveNo)
## S4 method for signature 'TDRcalibrate,missing'
getDiveModel(x)
## S4 method for signature 'TDRcalibrate,numeric'
getDiveModel(x, diveNo)
## S4 method for signature 'diveModel'
getDiveDeriv(x, phase=c("all", "descent", "bottom", "ascent"))
## S4 method for signature 'TDRcalibrate'
getDiveDeriv(x, diveNo, phase=c("all", "descent", "bottom", "ascent"))
## S4 method for signature 'TDRcalibrate,missing'
getGAct(x)
## S4 method for signature 'TDRcalibrate,character'
getGAct(x, y)
## S4 method for signature 'TDRcalibrate'
getSpeedCoef(x)
## S4 method for signature 'TDRcalibrate'
getTDR(x)

Arguments
x 

diveNo 
numeric vector with dive numbers to extract information from. 
y 
string; “dive.id”, “dive.activity”, or
“postdive.id” in the case of 
phase 
character vector indicating phase of the dive for which to extract the derivative. 
Value
The extractor methods return an object of the same class as elements of the slot they extracted.
Show Methods
 show
signature(object="TDRcalibrate")
: prints an informative summary of the data. show
signature(object="diveModel")
: prints an informative summary of a dive model.
Extractor Methods
 getDAct
signature(x="TDRcalibrate", y="missing")
: this accesses thedive.activity
slot ofTDRcalibrate
objects. Thus, it extracts a data frame with vectors identifying all readings to a particular dive and postdive number, and a factor identifying all readings to a particular activity. getDAct
signature(x="TDRcalibrate", y="character")
: as the method for missingy
, but selects a particular vector to extract. SeeTDRcalibrate
for possible strings. getDPhaseLab
signature(x="TDRcalibrate", diveNo="missing")
: extracts a factor identifying all readings to a particular dive phase. This accesses the dive.phases slot ofTDRcalibrate
objects, which is a factor. getDPhaseLab
signature(x="TDRcalibrate", diveNo="numeric")
: as the method for missingy
, but selects data from a particular dive number to extract. getDiveModel
signature(x="TDRcalibrate", diveNo="missing")
: extracts a list with all dive phase models. This accesses the dive.models slot ofTDRcalibrate
objects. getDiveModel
signature(x="TDRcalibrate", diveNo="numeric")
: as the method for missingdiveNo
, but selects data from a particular dive number to extract. getDiveDeriv
signature(x="TDRcalibrate")
: extracts the derivative (list) of the dive model (smoothing spline) from the dive.models slot ofTDRcalibrate
objects for one or all phases of a dive. getDiveDeriv
signature(x="diveModel")
: as the method forTDRcalibrate
, but selects data from one or all phases of a dive. getGAct
signature(x="TDRcalibrate", y="missing")
: this accesses thegross.activity
slot ofTDRcalibrate
objects, which is a named list. It extracts elements that divide the data into major wet and dry activities. getGAct
signature(x="TDRcalibrate", y="character")
: as the method for missingy
, but extracts particular elements. getTDR
signature(x="TDRcalibrate")
: this accesses the tdr slot ofTDRcalibrate
objects, which is aTDR
object. getSpeedCoef
signature(x="TDRcalibrate")
: this accesses thespeed.calib.coefs
slot ofTDRcalibrate
objects; the speed calibration coefficients.
Author(s)
Sebastian P. Luque spluque@gmail.com
See Also
diveModel
, plotDiveModel
,
plotTDR
.
Examples
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30  ## Continuing the Example from '?calibrateDepth':
utils::example("calibrateDepth", package="diveMove",
ask=FALSE, echo=FALSE)
dcalib # the 'TDRcalibrate' that was created
## Beginning times of each successive phase in record
getGAct(dcalib, "begin")
## Factor of dive IDs
dids < getDAct(dcalib, "dive.id")
table(dids[dids > 0]) # samples per dive
## Factor of dive phases for given dive
getDPhaseLab(dcalib, 19)
## Full dive model
(dm < getDiveModel(dcalib, 19))
str(dm)
## Derivatives
getDiveDeriv(dcalib, diveNo=19)
(derivs.desc < getDiveDeriv(dcalib, diveNo=19, phase="descent"))
(derivs.bott < getDiveDeriv(dcalib, diveNo=19, phase="bottom"))
(derivs.asc < getDiveDeriv(dcalib, diveNo=19, phase="ascent"))
if (require(lattice)) {
fl < c("descent", "bottom", "ascent")
bwplot(~ derivs.desc$y + derivs.bott$y + derivs.asc$y,
outer=TRUE, allow.multiple=TRUE, layout=c(1, 3),
xlab=expression(paste("Vertical rate (", m %.% s^1, ")")),
strip=strip.custom(factor.levels=fl))
}

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