run.d.wave: 'd.wave' 2D lunge detector for entire record, with validation
In embiuw/dWave:

Description Usage Arguments Value Author(s) See Also Examples

d.wave 2D lunge detector for entire record, with validation

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run.d.wave(name = NA, data = NULL, show.info = F, plotting = T,
  match.window = 15, smooth.window = 4, pper = 16, rper = 20,
  min.pdist = 40, min.ppow = 0.05, pk.e = 0.85)

`name`	Name of animal to analyse, if data are to be read from external files (default is NA)
`data`	Data frame containing dive info (e.g. created using `read.depth`, `read.lunges`, `join.dstamp` and `number.dive`).
`show.info`	Logical, should detaild information be shown while running function
`plotting`	Whether to plot the results or not
`match.window`	Size of time window within which peaks and lunges should be considered matched
`smooth.window`	Initial window of smooth for gaussian running mean filter (equivalent to `presmooth.window` in `d.wave`)
`pper`	Peak wavelet period for weighted power analysis (equivalent to `pk.per` in `d.wave`)
`rper`	Range of all periods to be considered in weighted power analysis (equivalent to `per.rng` in `d.wave`)
`min.pdist`	Minimum period between consecutive peaks (equivalent to `min.pkdist` in `d.wave`)
`min.ppow`	Minimum amplitude for peak to be considered significant (equivalent to `a.pk` in `d.wave`)
`pk.e`	Proportion of a.pk, used to set the duration of what is considered a peak (equivalent to `pk.env` in `d.wave`)

Returns a list with objects parameters, containing all parameters used when running detector, df data frame containing original data plus peak detections and matching information, detects list containing wavelet ojects for each dive, matched list containing 1) a logical vector indicating the occurrence of matched peaks/lunges, and 2) confusion matrix for matched and unmatched peaks/lunges

Martin Biuw

read.lunges to read lunge event timestamps, read.depth to read depth time series, join.dstamp to merge lunge events and dive data, number.dive to add dive numeric ID column, d.wave to run lunge detector omn single dives.

Other Lunge detector functions: d.wave.TDR.original, d.wave.TDR, d.wave, dstamp.plot, filter.lunges, gpsWhale, import.all.rene, join.dstamp, matDive, matLunge, match.lunges, mkDygraph, ncWhale, number.dive, optim.d.wave, read.depth, read.lunges, whale2dstamp, wt.image.plot

d <- read.depth(whalename='mn16_Jan25b')
t <- read.lunges(whalename='mn16_Jan25b')
df <- join.dstamp(d, t)
df$dive <- number.dive(df$depth)
df <- run.d.wave(data=df)