Streamline Bioacoustic Analysis

---

Documentation for package ‘warbleR’ version 1.1.28

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

auto_detec	'auto_detec' automatically detects the start and end of vocalizations in sound files based on amplitude, duration, and frequency range attributes.
by_element_est	Convert a by-song extended selection table to by-element
catalog	Create catalogs of vocal signals
catalog2pdf	Combine 'catalog' images into pdfs 'catalog2pdf' combines 'catalog' jpeg images into pdfs
check_sound_files	Check sound files
color_spectro	Highlight spectrogram regions
compare_methods	Assessing the performance of acoustic distance measurements
comp_matrix	Example matrix listing selections to be compared by 'cross_correlation'
consolidate	Consolidate (sound) files into a single directory
cross_correlation	Time-frequency cross-correlation
duration_sound_files	Measure the duration of sound files
envelope	Calculates the absolute amplitude envelope
filter_sels	Subset selection data frames based on manually filtered image files
find_annotations	Obtain annotations from audioblast.org data base
find_clipping	Find clipped selections
find_peaks	Find cross-correlation peaks
fix_extended_selection_table	Fix extended selection tables
fix_wavs	Fix .wav files to allow importing them into R
freq_DTW	Acoustic dissimilarity using dynamic time warping on dominant frequency contours
freq_range	Detect frequency range iteratively
freq_range_detec	Detect frequency range on wave objects
freq_ts	Extract frequency contours as time series
full_spectrogram2pdf	'full_spectrogram2pdf' combines 'full_spectrograms' images in .jpeg format to a single pdf file.
full_spectrograms	Create long spectrograms of whole sound files
gaps	Gap duration
image_to_wave	Convert images into wave objects
inflections	Count number of inflections in a frequency contour
info_sound_files	Get sound file parameter information
is_extended_selection_table	Class 'extended_selection_table': selection table containing wave objects
is_selection_table	Class 'selection_table': double-checked frequency/time coordinates of selections
lbh_selec_table	Example data frame of selections (i.e. selection table).
lbh_selec_table2	Example data frame of selections (i.e. selection table).
map_xc	Maps of 'Xeno-Canto' recordings by species
mfcc_stats	Calculate descriptive statistics on Mel-frequency cepstral coefficients
move_imgs	Move/copy image files between directories
mp32wav	Convert .mp3 files to .wav
multi_DTW	A wrapper on 'dtwDist' for comparing multivariate contours
new_function_names	Data frame detailing function name changes
open_wd	Open working directory
optimize_auto_detec	Optimize the detection of signals based on a-priori detections
overlapping_sels	Find overlapping selections
phylo_spectro	Add spectrograms onto phylogenetic trees
plot_coordination	Coordinated singing graphs
query_xc	Access 'Xeno-Canto' recordings and metadata
read_sound_file	An extended version of read_wave that reads several sound file formats and files from selection tables
read_wave	A wrapper for tuneR's readWave that read sound files listed within selection tables
remove_channels	Remove channels in wave files
remove_silence	Remove silence in wave files
rename_est_waves	Rename wave objects and associated metadata in extended selection tables
resample_est	Resample wave objects in a extended selection table
selec.table	Alternative name for 'lbh_selec_table'
selection_table	Create 'selection_table' and 'extended_selection_table' objects
sig2noise	Measure signal-to-noise ratio
simulate_songs	Simulate animal vocalizations
sim_coor_sing	Simulated coordinated singing events.
snr_spectrograms	Spectrograms with background noise margins
song_analysis	Calculates acoustic parameters at the song level
sort_colms	Sort columns in a more intuitive order
sound_pressure_level	Measure relative sound pressure level
spectrograms	Spectrograms of selected signals
spectro_analysis	Measure acoustic parameters in batches of sound files
split_sound_files	Splits sound files
tailor_sels	Interactive view of spectrograms to tailor selections
test_coordination	Randomization test for singing coordination
track_freq_contour	Spectrograms with frequency measurements
try_na	Wrapper for "try" function
tweak_spectro	Plot a mosaic of spectrograms with varying display parameters
warbleR	warbleR: A package to streamline bioacoustic analysis
warbleR_options	Setting warbleR options
wav_2_flac	Convert .wav files to .flac
wpd_features	Measure wavelet packet decomposition features (EXPERIMENTAL)