This class holds information produced at various stages of dive analysis. Methods are provided for extracting data from each slot.
callObject of class call. The matched call to the
function that created the object.
tdrObject of class TDR. This slot contains the
time, zero-offset corrected depth, and possibly a data frame. If
the object is also of class "TDRspeed", then the data frame might
contain calibrated or uncalibrated speed. See
readTDR and the accessor function
getTDR for this slot.
gross.activityObject of class ‘list’. This slot holds a
list of the form returned by .detPhase, composed of 4
elements. It contains a vector (named phase.id) numbering
each major activity phase found in the record, a factor (named
activity) labelling each row as being dry, wet, or trivial
wet activity. These two elements are as long as there are rows in
tdr. This list also contains two more vectors, named
begin and end: one with the beginning time of each
phase, and another with the ending time; both represented as
POSIXct objects. See .detPhase.
dive.activityObject of class data.frame. This
slot contains a data.frame of the form returned by
.detDive, with as many rows as those in tdr,
consisting of three vectors named: dive.id, which is an
integer vector, sequentially numbering each dive (rows that are not
part of a dive are labelled 0), dive.activity is a factor which
completes that in activity above, further identifying rows
in the record belonging to a dive. The third vector in
dive.activity is an integer vector sequentially numbering
each postdive interval (all rows that belong to a dive are labelled
0). See .detDive, and getDAct to
access all or any one of these vectors.
dive.phasesObject of class ‘factor’. This slot is a
factor that labels each row in the record as belonging to a
particular phase of a dive. It has the same form as the
“phase.labels” component of the list returned by
.labDivePhase.
dive.modelsObject of class ‘list’. This slot contains
the details of the process of dive phase identification for each
dive. It has the same form as the dive.models component of
the list returned by .labDivePhase. It has as many
components as there are dives in the TDR object, each
of them of class diveModel.
dry.thrObject of class ‘numeric’. The temporal criteria used for detecting dry periods that should be considered as wet.
wet.thrObject of class ‘numeric’ the temporal criteria used for detecting periods wet that should not be considered as foraging time.
dive.thrObject of class ‘numeric’. The temporal criteria used for detecting periods wet that should not be considered as foraging time.
speed.calib.coefsObject of class ‘numeric’. The intercept and slope derived from the speed calibration procedure. Defaults to c(0, 1) meaning uncalibrated speeds.
Objects can be created by calls of the form new("TDRcalibrate",
...{}). The objects of this class contain information necessary to
divide the record into sections (e.g. dry/water), dive/surface, and
different sections within dives. They also contain the parameters used
to calibrate speed and criteria to divide the record into phases.
Sebastian P. Luque spluque@gmail.com
This is perhaps the most important class in diveMove, as it holds all the information necessary for calculating requested summaries for a TDR.
TDR for links to other classes in the package.
TDRcalibrate-methods for the various methods
available.