R: Bioacoustic Analysis and Publication Tools

# Bioacoustic Analysis and Publication Tools

## Documentation for package ‘sonicscrewdriver’ version 0.0.7.1

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS

## Help Pages

A B C D E F G H J L M N P R S T U V W Y Z misc

## -- A --

ab_diel_traits | Convert text times of day in audioblast traits to numeric values
ab_seqss_nearestStart | Nearest start time
addProcess | Add a process to a Tagged Wave or WaveMC object
addProcess-method | Add a process to a Tagged Wave or WaveMC object
addSpectra | Add two spectra from seewave
allChannels | Apply a function to all channels of a Wave or WaveMC object
annotation | Create a new Annotation object
Annotation-class | A S4 class for annotations
audioblast | Get data or analyses from audioBlast
audioblastDownload | Download audio files from audioBlast
audiomothConfig | Read AudioMoth configuration file
audiomothWave | Read AudioMoth metadata from a wave file
audio_filesize | Calculated size of raw audio files
autoBandPass | Automatic Band Pass Filter

## -- B --

bandpass | Simple bandpass filter
beatComplexity | Beat spectrum complexity
beatSpectrum | Computes a beat spectrum
birdNetAnalyse | Analyse sound files using BirdNET-Analyzer
birdNetInstall | Install the BirdNET environment

## -- C --

channels_se | Channels for sound ecology
circularise | Circularise a dataset
concat | Concatenate two or more Wave-like objects.
concat-method | Concatenate two or more Wave-like objects.
convert2bytes | Convert bits to bytes
convert2Celsius | Convert temperature to Celsius
convert2degrees | Convert angle to degrees
convert2dyne_cm2 | Convert pressure to dyne per square centimetre
convert2Fahrenheit | Convert temperature to Fahrenheit
convert2Kelvin | Convert temperature to Kelvin
convert2Pascals | Convert pressure to Pascals
convert2radians | Convert angle to radians
convert2seconds | Convert time to seconds
corWaveMC | Correlate channels in a WaveMC object
cutws | Cut wave by samples

## -- D --

data2Wave | Convert data into a Wave object
dayPhase | Phase of day
dayPhases | Phases of day
daysPhases | Phases of days
defaultCluster | Create Default Cluster for Windowing
dielFraction | Calculate the fraction of a day given by a value
dielHistogram | Diel Histogram
dielLabels | Generate labels for a diel plot
dielPlot | Create a diel plot
dielPositions | Generate positions of labels for a diel plot
dielRings | Plot rings on a diel plot
dolbear | Dolbear's law
dutyCycle | Calculate the duty cycle of a wave

## -- E --

emptyDiel | Create an empty diel plot
emptyYearly | Create an empty yearly plot
entropyStats | Various measurements of frequency values for a Wave object

## -- F --

filterWave | Apply a WaveFilter object to a Wave object
frequencySound | Get the frequency from wavelength and speed of sound
frequencyStats | Various measurements of frequency values for a Wave object

## -- G --

generateNoise | Add noise to a Wave like object
generateTimeMask | Generate time masked Wave-like objects
generateTimeShift | Generated time-shifted versions of a Wave-like object
gs_transcribe | Google Speech API Transcribe

## -- H --

humanBytes | Converts bytes in human readable form
humanTime | Converts time to human readable form

## -- J --

jitter | Calculate the jitter in a Wave object

## -- L --

labelPadding | Pad labels with interval
labelReduction | Combines labels which overlap into single continuous regions

## -- M --

map2RGB | Map three vectors to RGB

## -- N --

naturalFrequency | Calculate the natural frequency
normalise | Normalise a Wave object
ntd | Natural Time Domain

## -- P --

parseFilename | Parse a filename
pd_dietrich2004 | Pulse detection using Dietrich (2004)
pd_simple | Simplified pulse detection using Dietrich (2004)
pseudoWave | Create a PseudoWave object
PseudoWave-class | An S4 class to represent a PseudoWave object that is converted to a Wave object when operated on.
pulse | Generate a single pulse
pulseDetection | Pulse detection
pulseIntervals | Pulse intervals

## -- R --

radarPower | The radar equation
radarRange | Radar range
radialPolygon | Plot a radial polygon
rainfallDetection | Rainfall detection
readAudacityLabels | Read an Audacity label file
readAudio | Read an audio file
readBirdNet | Read output files from BirdNet Analyser
readRespeaker6 | Read a file from Seeed Studio Respeaker 6 mic array
referenceIntensity | Reference intensity
referencePressure | Reference pressure
region | Specify a region with a file to analyse
resonantFrequency | Calculate the resonant frequency

## -- S --

sDuration | Sample duration
sheepFrequencyStats | Sheep frequencyStats
shimmer | Calculate the shimmer in a Wave object
soundSpeed | Calculate the speed of sound in a medium
specStats | Calculate and plot statistics on a frequency spectrum
ste | Short term energy
STP | STP: Standard Temperature and Pressure
subtractSpectra | Subtract two spectra from seewave
sweptsine | Generate a sine sweep

## -- T --

TaggedWave-class | A S4 class for tagged waves
TaggedWaveMC-class | A S4 class for tagged multi-channel waves
tagWave | Tag a Wave or WaveMC object
TimeRegion-class | An S4 class to represent a TimeRegion within a Wave object.
tSamples | Samples per time period
typicalVolume | Typical volumes
tzRot | Converts a timezone offset into a rotation

## -- U --

untagWave | Untag a TaggedWave or TaggedWaveMC object
upsample | Upsample a wave

## -- V --

validateIsWave | Check an object is a Wave object

## -- W --

WaveFilter-class | WaveFilter object for audio filters
windowing | Windowing Function for Wave Objects
writeAudacityLabels | Write an Audacity label file

## -- Y --

yearlyFraction | Calculate the fraction of a year given by a value
yearlyLabels | Generate labels for a yearly plot
yearlyPlot | Create a yearly plot
yearlyPositions | Generate positions of labels for a yearly plot

## -- Z --

zerocross | Identify zero crossings in a Wave object
zeroSpectrum | Zero spectrum

## -- misc --

*-method | PseudoWave scalar manipulation
*-method | Numeric multiplication by PseudoWave
+-method | PseudoWave scalar addition
+-method | Numeric addition by PseudoWave
--method | PseudoWave scalar subtraction
/-method | PseudoWave scalar division
[-method | Allow subsetting a Wave object with a TimeRegion