Description Details Objects from the Class Slots Author(s) See Also
This class holds information produced at various stages of dive analysis. Methods are provided for extracting data from each slot.
This is perhaps the most important class in diveMove, as it holds all the information necessary for calculating requested summaries for a TDR.
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.
call
:Object of class call
.
The matched call to the function that created the object.
tdr
:Object 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.activity
:Object 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.activity
:Object 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.phases
:Object 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.models
:Object 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.thr
:Object of class ‘numeric’ the temporal criteria used for detecting dry periods that should be considered as wet.
wet.thr
:Object of class ‘numeric’ the temporal criteria used for detecting periods wet that should not be considered as foraging time.
dive.thr
:Object of class ‘numeric’ the criteria used for defining a dive.
speed.calib.coefs
:Object of class ‘numeric’ the intercept and slope derived from the speed calibration procedure. Defaults to c(0, 1) meaning uncalibrated speeds.
Sebastian P. Luque spluque@gmail.com
TDR
for links to other classes in the package.
TDRcalibrate-methods
for the various methods available.
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