findsylls 1.0.1

Unsupervised syllable segmentation, evaluation, and embedding extraction toolkit for speech audio

findsylls

Unsupervised syllable segmentation, evaluation, and embedding extraction toolkit for speech audio. Extract amplitude/modulation envelopes, segment into syllables, extract per-syllable embeddings, and evaluate versus TextGrid annotations.

Features

Core Segmentation & Evaluation

• Classical envelope-based methods: RMS, Hilbert, low-pass, spectral band subtraction (SBS), gammatone, theta oscillator
• End-to-end neural methods (optional): Sylber (self-supervised syllabic distillation)
• Peak & valley segmentation using Billauer's peakdetect algorithm
• Robust TextGrid parsing for phones, syllables, words with vowel filtering
• Multi-level evaluation metrics (precision/recall/F1 at nuclei, boundaries, spans)
• Batch pipeline utilities + fuzzy filename matching

Syllable Embedding Pipeline ✨ NEW in v1.0.0

Extract per-syllable embeddings for clustering, classification, and cross-lingual analysis:

Embedder Methods:

• sylber - 768-dim self-supervised (GPU, ~50 fps)
• vg_hubert - 768-dim VG-HuBERT (GPU, ~50 fps, requires manual download)
• mfcc - 13/26/39-dim with delta/delta-delta (CPU, ~100 fps)
• melspec - 80-dim mel-filterbank (CPU, ~100 fps)

Pooling Methods:

• mean - Average frames within syllable (default)
• onc - Onset-Nucleus-Coda template (3× dimensions, preserves structure)
• max, median - Alternative aggregations

Storage Formats:

• NPZ (NumPy, always available)
• HDF5 (optional, requires h5py, memory-mapped for large corpora)

Install

# Core installation (envelope-based segmentation + MFCC/Mel embeddings)
pip install findsylls

# With end-to-end neural segmentation (Sylber)
pip install 'findsylls[end2end]'

# With HDF5 storage for large embedding datasets
pip install 'findsylls[storage]'

# With neural embedders (VG-HuBERT, requires PyTorch)
pip install 'findsylls[embedding]'

# With all optional features
pip install 'findsylls[all]'

# With visualization extras
pip install 'findsylls[viz]'

# Local development (editable)
pip install -e .[dev]

Note: Neural methods (Sylber, VG-HuBERT) require PyTorch and download pre-trained models on first use (~500-800MB).

Quick Start

Syllable Segmentation

from findsylls import segment_audio

# Segment audio into syllables
sylls, env, t = segment_audio(
    "example.wav",
    envelope_fn="sbs",
    segment_fn="peaks_and_valleys"
)
# sylls: [(start, peak, end), ...]
print(f"Found {len(sylls)} syllables")

Syllable Embeddings ✨

from findsylls import embed_audio

# Extract per-syllable embeddings (single file)
embeddings, metadata = embed_audio(
    'audio.wav',
    segmentation='peaks_and_valleys',  # or 'sylber'
    embedder='mfcc',                   # or 'sylber', 'vg_hubert'
    pooling='mean'                     # or 'onc', 'max'
)
# embeddings: (num_syllables, embedding_dim) NumPy array
# metadata: dict with boundaries, methods, timestamps

print(f"Shape: {embeddings.shape}")
print(f"Syllables: {metadata['num_syllables']}")

# Process entire corpus (batch)
from findsylls import embed_corpus, save_embeddings

results = embed_corpus(
    audio_paths=['audio1.wav', 'audio2.wav', 'audio3.wav'],
    segmentation='peaks_and_valleys',
    embedder='mfcc',
    pooling='mean',
    n_jobs=4  # Parallel processing
)

# Save to disk
save_embeddings(results, 'embeddings.npz')  # or .h5 for HDF5

MFCC with Delta Features

from findsylls import embed_audio

# 13-dim MFCC
embeddings_13, _ = embed_audio('audio.wav', embedder='mfcc')

# 26-dim MFCC (13 + 13 delta)
embeddings_26, _ = embed_audio(
    'audio.wav',
    embedder='mfcc',
    embedder_kwargs={'include_delta': True}
)

# 39-dim MFCC (13 + 13 delta + 13 delta-delta)
embeddings_39, _ = embed_audio(
    'audio.wav',
    embedder='mfcc',
    embedder_kwargs={'include_delta': True, 'include_delta_delta': True}
)

Batch Evaluation

from findsylls import run_evaluation, aggregate_results

results = run_evaluation(
    textgrid_paths="data/**/*.TextGrid",
    wav_paths="data/**/*.wav",
    phone_tier=1,
    syllable_tier=2,
    word_tier=3,
    envelope_fn="hilbert",
)
print(results.head())

# Aggregate metrics
summary = aggregate_results(results, dataset_name="MyCorpus")
print(summary)

CLI

After install:

# Segment audio
findsylls segment input.wav --envelope sbs --method peaks_and_valleys --out sylls.json

# Extract embeddings
findsylls embed input.wav --embedder mfcc --pooling mean --out embeddings.npz

# Evaluate against TextGrid annotations
findsylls evaluate "data/**/*.wav" "data/**/*.TextGrid" \
    --phone-tier 1 --syllable-tier 2 --word-tier 3 \
    --envelope hilbert --out results.csv

# Show help
findsylls --help
findsylls segment --help
findsylls embed --help
findsylls evaluate --help

---

Documentation

• EMBEDDING_PIPELINE.md - Complete embedding guide with architecture
• VALIDATION_RESULTS.md - Validation against legacy implementation (r=0.9990)
• PHASE1_COMPLETE.md - Phase 1 implementation details
• PHASE2_SUMMARY.md - Phase 2 enhancements (VG-HuBERT, MFCC deltas)
• PHASE3_SUMMARY.md - Phase 3 corpus processing
• VG_HUBERT_README.md - VG-HuBERT setup guide
• examples/ - Usage examples for all features

---

Syllable Embedding Pipeline

The embedding pipeline extends findsylls to extract per-syllable embeddings for downstream tasks.

Key Concepts

Two orthogonal dimensions:

1. Embedder (feature extraction): Sylber, VG-HuBERT, MFCC, Mel-spectrogram
2. Pooling (frame → syllable aggregation): mean, ONC template, max, median

Any segmentation method can feed any embedding method.

Complete Example

from findsylls import embed_audio

# Single file with full control
embeddings, metadata = embed_audio(
    'audio.wav',
    segmentation='peaks_and_valleys',  # Segmentation method
    embedder='sylber',                 # Feature extractor
    pooling='mean',                    # Aggregation method
    sr=16000,                          # Sample rate
    return_metadata=True               # Include metadata
)

# embeddings: (num_syllables, 768) for Sylber
# metadata contains: boundaries, peaks, num_syllables, methods, etc.

# Corpus processing with storage
from findsylls import embed_corpus, save_embeddings

results = embed_corpus(
    audio_paths=['data/audio1.wav', 'data/audio2.wav'],
    segmentation='peaks_and_valleys',
    embedder='mfcc',
    pooling='mean',
    embedder_kwargs={'include_delta': True},  # 26-dim MFCC
    n_jobs=4  # Parallel processing
)

# Save to disk (auto-detects format from extension)
save_embeddings(results, 'embeddings.npz')   # NumPy format
save_embeddings(results, 'embeddings.h5')    # HDF5 format (requires h5py)

Embedder Options

Neural (GPU-enabled, requires [embedding] or [all]):

• sylber - 768-dim, ~50 fps, self-supervised
• vg_hubert - 768-dim, ~50 fps, phonetically-informed (requires manual download)

Classical (CPU-optimized, always available):

• mfcc - 13/26/39-dim (with deltas), ~100 fps
• melspec - 80-dim mel-filterbank, ~100 fps

Pooling Options

• mean - Average frames in syllable span (default)
• onc - Onset-Nucleus-Coda template (3× dimensions)
  • Onset: 30% from start to peak
  • Nucleus: peak frame
  • Coda: 70% from peak to end
• max - Max pooling across time
• median - Median pooling

Storage Options

from findsylls import save_embeddings, load_embeddings

# NumPy format (always available, good for small-medium datasets)
save_embeddings(results, 'embeddings.npz')
loaded = load_embeddings('embeddings.npz')

# HDF5 format (requires h5py, best for large corpora)
# Supports memory-mapped partial loading
save_embeddings(results, 'embeddings.h5')
loaded = load_embeddings('embeddings.h5')  # Full load
loaded = load_embeddings('embeddings.h5', indices=[0, 5, 10])  # Partial load

For complete documentation, see docs/EMBEDDING_PIPELINE.md.

---

API Reference

Segmentation & Evaluation

Function	Purpose
segment_audio	One-file end-to-end (load → envelope → segment)
run_evaluation	Batch match WAV/TextGrid and compute metrics
get_amplitude_envelope	Compute envelope via registered method
segment_envelope	Dispatch segmentation algorithm
flatten_results / aggregate_results	Reshape & aggregate evaluation outputs
plot_segmentation_result	Multi-panel qualitative plot (optional)

Embedding Extraction ✨

Function	Purpose
embed_audio	Extract syllable embeddings from single audio file
embed_corpus	Batch embedding extraction with parallel processing
save_embeddings	Save embeddings to NPZ or HDF5 format
load_embeddings	Load embeddings from NPZ or HDF5 format

Validation

v1.0.0 validated against legacy spot_the_word implementation:

• ✅ r=0.9990 correlation on MFCC embeddings
• ✅ 100% syllable count match (10/10 test files)
• ✅ Identical segmentation boundaries
• Tested on Brent corpus (4,209 syllables, 862 utterances)

See docs/VALIDATION_RESULTS.md for full report.

Adding Methods

1. Envelope: implement compute_* returning (env, times) in envelope/ and register in envelope/dispatch.py.
2. Segmentation: implement segment_<name>(envelope, times, **kwargs) in segmentation/ and add branch in segmentation/dispatch.py.

TextGrid Tier Indexing

Indices are 0-based (as provided by the textgrid library). Pass None to skip a tier or -1 for placeholder syllable generation (currently returns empty list).

Evaluation Conventions

• Default tolerance = 0.05s.
• Evaluation keys are generated dynamically based on tier specifications (e.g., syllable_boundaries, word_spans).
• To evaluate against a new tier, pass it via the tiers parameter: tiers={'my_tier': 3}.
• Substitutions matter for span metrics; remain zero for nuclei/boundary F1 semantics.

Roadmap

• Classical envelope-based segmentation (v0.1.0)
• Multi-level TextGrid evaluation (v0.1.0)
• End-to-end neural segmentation (Sylber) (v0.1.1)
• Syllable embedding pipeline (v1.0.0)
  • Core extractors (Sylber, MFCC, Mel-spectrogram)
  • Pooling methods (mean, ONC, max, median)
  • Corpus processing with parallel execution
  • Storage utilities (NPZ, HDF5)
  • VG-HuBERT support with MFCC delta features
• Additional neural embedders (HuBERT, Wav2Vec2, WavLM)
• Streaming / large-file handling
• Alternative segmentation algorithms (Mermelstein, oscillator-based)
• Enhanced CLI with progress tracking

Performance Notes

• Audio loading prefers torchaudio (install separately) else falls back to soundfile/librosa
• Envelope computation is vectorized (NumPy); SBS/Hilbert faster than theta/gammatone
• Embedding extraction: Neural methods (GPU) ~50 fps, Classical methods (CPU) ~100 fps
• Corpus processing supports parallel execution via n_jobs parameter

FAQ

Can I use my own segmentation boundaries?
Yes! Extract embeddings from pre-segmented syllables by calling the lower-level API (see docs/EMBEDDING_PIPELINE.md).

Why are boundary/spans columns missing in evaluation?
If a tier index is None or produces no intervals, those metrics are skipped.

How do I add a custom envelope method?
Implement a function returning (envelope, times) and register it in envelope/dispatch.py.

Can I stream long recordings?
Not yet; current design assumes full in-memory arrays. Streaming is on the roadmap.

Why do I get 0 TP for nuclei evaluation?
Likely vowel set mismatch; confirm phone tier labels match ARPABET or adjust SYLLABIC constant.

What's the difference between ONC pooling methods?
Our onc pooling = legacy spot_the_word onc-strict (30% onset, peak nucleus, 70% coda).

Roadmap / TODO

• Implement generate_syllable_intervals (placeholder now).
• Additional segmentation algorithms (Mermelstein, oscillator-based).
• More robust CLI progress + JSON schema for outputs.
• Optional streaming / large-file handling.

Roadmap / TODO

• Implement generate_syllable_intervals (placeholder now).
• Additional segmentation algorithms (Mermelstein, oscillator-based).
• More robust CLI progress + JSON schema for outputs.
• Optional streaming / large-file handling.

Legacy Code

The previous exploratory/monolithic implementations are retained under a legacy/ folder (formerly old/ and findsylls_old/) for reference only. They are excluded from distribution and not supported; prefer the public API described above.

License

MIT. See LICENSE.

Citation

If you use this software in academic work, please cite the repository until a formal paper/preprint is available. A CITATION.cff file will appear in a future release.

Plain text:

Vázquez Martínez, Héctor Javier. (2024). findsylls: Unsupervised syllable segmentation, evaluation, and embedding extraction toolkit (Version 1.0.0) [Computer software]. https://github.com/hjvm/findsylls

BibTeX:

@software{findsylls,
    author = {Vázquez Martínez, Héctor Javier},
    title = {findsylls: Unsupervised syllable segmentation, evaluation, and embedding extraction toolkit},
    year = {2024},
    version = {1.0.0},
    url = {https://github.com/hjvm/findsylls},
    license = {MIT}
}

---

For development guidelines see .github/copilot-instructions.md.