Streamline Bioacoustic Analysis


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Documentation for package ‘warbleR’ version 1.1.26

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auto_detec 'auto_detec' automatically detects the start and end of vocalizations in sound files based on amplitude, duration, and frequency range attributes.
catalog Create catalog of vocal signals
catalog2pdf Combine 'catalog' images into pdfs 'catalog2pdf' combines 'catalog' jpeg images into pdfs
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_wavs 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_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
image_to_wave Convert images into wave objects
inflections Count number of inflections in a frequency contour
info_wavs Get wave 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 A 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
selec.table Alternative name for 'lbh_selec_table'
selection_table Create 'selection_table' and 'extended_selection_table' objects
sig2noise Measure signal-to-noise ratio
sim_coor_sing Simulated coordinated singing events.
sim_songs Simulate animal vocalizations
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
spectrograms Spectrograms of selected signals
spectro_analysis Measure acoustic parameters in batches of 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
wpd_features Measure wavelet packet decomposition features (EXPERIMENTAL)