Package index • ASAP

Object Construction

Functions for creating and writing the core SAP object

create_sap_object(): Create a Sound Analysis Pro (SAP) Object from Audio Recordings
create_sap_metadata(): Create metadata for audio files recorded by SAP2011 (Sound Analysis Pro)

Curated Song Export

Functions for exporting user-choice audio clips, bouts, and motifs.

create_audio_clip(): Create Audio Clips from Sound Files
create_motif_clips(): Create Motif Audio Clips
create_bout_clips(): Create Bout Audio Clips

Detection & Segmentation

Functions for finding bouts, motifs and segmenting syllables

find_bout(): Detect Song Bouts in Audio Recordings
find_motif(): Find Motifs in Song Data
refine_motif_boundaries(): Refine Motif Boundaries Using Segment Alignment
segment(): Segment Audio into Syllables

Template Matching

Functions for establishing and detecting specific acoustic templates

create_template(): Create Correlation Templates for Song Analysis
detect_template(): Detect Templates in Song Data

Feature Extraction & Clustering

Functions to extract acoustic features (FF, goodness, etc) and cluster segments

extract_spec(): Extract and pad spectrograms from audio segments
analyze_spectral(): Analyze Spectral Features of Audio Segments
FF(): Fundamental Frequency Analysis and Visualization
goodness(): Pitch Goodness Analysis
spectral_entropy(): Calculate Spectral Entropy for Audio Segments
find_clusters(): Find Clusters in Feature Data
amp_env(): Calculate Amplitude Envelope for Audio Segment
refine_FF(): Refine Fundamental Frequency Detection
refine_sh(): Refine Spectral Entropy Using Temporal Template

Dimensionality Reduction

Functions dedicated to reducing acoustic parameter dimensionality

run_pca(): Run Principal Component Analysis
run_umap(): Run UMAP Dimensionality Reduction
create_trajectory_matrix(): Create Spectrogram Matrices for Song Trajectory Analysis

Plotting & Visualization

Plotting functionality for exploring ASAP objects

plot_traces(): Plot Traces of Song Features
plot_clusters(): Plot Clusters in Time Series Data
plot_heatmap(): Plot Heatmap of Amplitude Envelopes
plot_umap(): Plot UMAP Visualization
plot_umap2(): Plot UMAP Visualization for Trajectory Analysis
plot_motif_boundaries(): Visualize Motif Boundaries in Audio Data
visualize_song(): Visualize Song Data
visualize_segments(): Visualize Song Segments

Labeling

Functions for annotating clustered syllables

auto_label(): Automatic Syllable Labeling in Song Motif
manual_label(): Manual Syllable Labeling for Bird Song Analysis

Utilities

Various utility functions for working with ASAP objects and audio files.

compute_wav_durations(): Compute WAV File Durations
denoise(): Denoise Audio Files
get_wav_indices(): Get Indices of WAV Files in SAP Object Metadata
list_numeric_dirs(): List Numeric Subdirectory Names
anova_analysis(): Perform ANOVA and Multiple Comparisons Analysis