warbleR: Streamline Bioacoustic Analysis

A tool to streamline the analysis of animal acoustic signal structure. The package offers functions for downloading avian vocalizations from the open-access online repository Xeno-Canto, displaying the geographic extent of the recordings, manipulating sound files, detecting acoustic signals or importing detected signals from other software, assessing performance of methods that measure acoustic similarity, conducting cross-correlations, dynamic time warping, measuring acoustic parameters and analysing interactive vocal signals, among others. Most functions working iteratively allow parallelization to improve computational efficiency.

Install the latest version of this package by entering the following in R:
install.packages("warbleR")
AuthorMarcelo Araya-Salas & Grace Smith Vidaurre
Date of publication2017-04-24 18:42:52 UTC
MaintainerMarcelo Araya-Salas <araya-salas@cornell.edu>
LicenseGPL (>= 2)
Version1.1.7
https://github.com/maRce10/warbleR

View on CRAN

Man pages

autodetec: Automatically detect vocalizations in sound files

catalog: Create catalog of vocal signals

catalog2pdf: 'catalog2pdf' combines 'catalog' images into pdfs

checksels: Check selection data frames

checkwavs: Check .wav files

compare.methods: Assessing the performance of acoustic distance measurements

coor.graph: Coordinated singing graphs

coor.test: Randomization test for singing coordination

Cryp.soui: Acoustic recording of _Crypturellus soui_ (Little Tinamou).

dfDTW: Acoustic dissimilarity using dynamic time warping on dominant...

dfts: Extract the dominant frequency values as a time series

ffDTW: Acoustic dissimilarity using dynamic time warping on...

ffts: Extract the fundamental frequency values as a time series

filtersels: Subset selection data frames based on manually filtered image...

fixwavs: Fix .wav files to allow importing them into R

imp.raven: Import Raven selections

imp.syrinx: Import Syrinx selections

internals: 'warbleR' Internal Functions

lspec: Create long spectrograms of whole sound files

lspec2pdf: 'lspec2pdf' combines 'lspec' images in .jpeg format to a...

manualoc: Interactive view of spectrograms

mp32wav: Convert .mp3 files to .wav

Phae.long1: Audio recording #1 of _Phaethornis longirostris_

Phae.long2: Audio recording #2 of _Phaethornis longirostris_

Phae.long3: Audio recording #3 of _Phaethornis longirostris_

Phae.long4: Audio recording #1 of _Phaethornis longirostris_

querxc: Access Xeno-Canto recordings and metadata

selec.table: Data frame of selections (i.e. selection table).

selection.files: Selections files from Raven and Syrinx.

seltailor: Interactive view of spectrograms to tailor start and end of...

sig2noise: Measure signal-to-noise ratio

sim.coor.sing: Simulated coordinated singing events.

snrspecs: Spectrograms with background noise margins

specan: Measure acoustic parameters in batches of sound files

specreator: Spectrograms of selected signals

sp.en.ts: Extract the spectral entropy across signals as a time series

trackfreqs: Spectrograms with frequency measurements

warbleR: warbleR: A package to streamline bioacoustic analysis

wavdur: Measure the duration of sound files

xcmaps: Maps of Xeno-Canto recordings by species

xcorr: Spectrogram cross-correlation

xcorr.graph: Pairwise plots of spectrogram cross-correlation scores

Functions

autodetec Man page
catalog Man page
catalog2pdf Man page
checksels Man page
checkwavs Man page
compare.methods Man page
coor.graph Man page
coor.test Man page
Cryp.soui Man page
dfDTW Man page
dfts Man page
ffDTW Man page
ffts Man page
filtersels Man page
fixwavs Man page
imp.raven Man page
imp.syrinx Man page
lspec Man page
lspec2pdf Man page
manualoc Man page
mp32wav Man page
Phae.long1 Man page
Phae.long2 Man page
Phae.long3 Man page
Phae.long4 Man page
querxc Man page
rectw Man page
selec.table Man page
selection.files Man page
seltailor Man page
sig2noise Man page
sim.coor.sing Man page
snrspecs Man page
specan Man page
specreator Man page
spectro2 Man page
spectroW Man page
sp.en.ts Man page
trackfreqs Man page
warbleR Man page
warbleR-package Man page
wavdur Man page
xcmaps Man page
xcorr Man page
xcorr.graph Man page

Files

inst
inst/CITATION
inst/doc
inst/doc/warbleR_workflow.html
inst/doc/warbleR_workflow.R
inst/doc/warbleR_workflow.Rmd
NAMESPACE
NEWS.md
data
data/Phae.long4.rda
data/selec.table.rda
data/selection.files.rda
data/sim.coor.sing.rda
data/Phae.long2.rda
data/Cryp.soui.rda
data/Phae.long3.rda
data/Phae.long1.rda
R
R/checkwavs.R R/lspec2pdf.R R/imp.raven.R R/ffts.R R/Phae.long3-data.R R/sim.coor.sing-data.R R/dfDTW.R R/selection.files-data.R R/imp.syrinx.R R/Phae.long4-data.R R/xcorr.R R/autodetec.R R/snrspecs.R R/xcmaps.R R/spectroW.R R/compare.methods.R R/wavdur.R R/sp.en.ts.R R/manualoc.R R/checksels.R R/spectro2.R R/catalog2pdf.R R/dfts.R R/coor.test.R R/Phae.long2-data.R R/querxc.R R/rectw.R R/catalog.R R/specan.R R/sig2noise.R R/mp32wav.R R/ffDTW.R R/Phae.long1-data.R R/trackfreqs.R R/seltailor.R R/Cryp.soui-data.R R/coor.graph.R R/specreator.R R/xcorr.graph.R R/lspec.R R/filtersels.R R/selec.table-data.R R/zzz.R R/fixwavs.R R/warbleR-package.R
vignettes
vignettes/Logo_Warble-azul_small_margin.png
vignettes/Phaethornis-longirostris-154161.wav-139-trackfreqs.jpeg
vignettes/Phae.snr.csv
vignettes/Phaethornis-longirostris-154072.wav-104-.jpeg
vignettes/workflow2.png
vignettes/Phaethornis-longirostris-154072-p1.jpg
vignettes/154161-autodetec.th15.jpg
vignettes/Phaethornis-longirostris-154072.wav-8-snr2.jpeg
vignettes/Phaethornis-longirostris-154072.wav-8-snr.jpeg
vignettes/manualoc.jpg
vignettes/acoustic_parameters.csv
vignettes/warbleR_workflow.Rmd
vignettes/song_types_spectros.jpg
vignettes/154161-autodetec.th10.jpg
README.md
MD5
build
build/vignette.rds
DESCRIPTION
man
man/selec.table.Rd man/coor.test.Rd man/filtersels.Rd man/xcorr.Rd man/Phae.long2.Rd man/selection.files.Rd man/Phae.long1.Rd man/warbleR.Rd man/Cryp.soui.Rd man/sp.en.ts.Rd man/coor.graph.Rd man/imp.syrinx.Rd man/trackfreqs.Rd man/specreator.Rd man/querxc.Rd man/Phae.long4.Rd man/autodetec.Rd man/seltailor.Rd man/xcmaps.Rd man/specan.Rd man/lspec.Rd man/catalog2pdf.Rd man/lspec2pdf.Rd man/ffDTW.Rd man/sig2noise.Rd man/sim.coor.sing.Rd man/catalog.Rd man/imp.raven.Rd man/internals.Rd man/xcorr.graph.Rd man/ffts.Rd man/wavdur.Rd man/dfDTW.Rd man/checksels.Rd man/fixwavs.Rd man/dfts.Rd man/mp32wav.Rd man/Phae.long3.Rd man/manualoc.Rd man/checkwavs.Rd man/compare.methods.Rd man/snrspecs.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.