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Dec 10

The Effect of Spectrogram Reconstruction on Automatic Music Transcription: An Alternative Approach to Improve Transcription Accuracy

Most of the state-of-the-art automatic music transcription (AMT) models break down the main transcription task into sub-tasks such as onset prediction and offset prediction and train them with onset and offset labels. These predictions are then concatenated together and used as the input to train another model with the pitch labels to obtain the final transcription. We attempt to use only the pitch labels (together with spectrogram reconstruction loss) and explore how far this model can go without introducing supervised sub-tasks. In this paper, we do not aim at achieving state-of-the-art transcription accuracy, instead, we explore the effect that spectrogram reconstruction has on our AMT model. Our proposed model consists of two U-nets: the first U-net transcribes the spectrogram into a posteriorgram, and a second U-net transforms the posteriorgram back into a spectrogram. A reconstruction loss is applied between the original spectrogram and the reconstructed spectrogram to constrain the second U-net to focus only on reconstruction. We train our model on three different datasets: MAPS, MAESTRO, and MusicNet. Our experiments show that adding the reconstruction loss can generally improve the note-level transcription accuracy when compared to the same model without the reconstruction part. Moreover, it can also boost the frame-level precision to be higher than the state-of-the-art models. The feature maps learned by our U-net contain gridlike structures (not present in the baseline model) which implies that with the presence of the reconstruction loss, the model is probably trying to count along both the time and frequency axis, resulting in a higher note-level transcription accuracy.

  • 4 authors
·
Oct 19, 2020

Investigating Neural Machine Translation for Low-Resource Languages: Using Bavarian as a Case Study

Machine Translation has made impressive progress in recent years offering close to human-level performance on many languages, but studies have primarily focused on high-resource languages with broad online presence and resources. With the help of growing Large Language Models, more and more low-resource languages achieve better results through the presence of other languages. However, studies have shown that not all low-resource languages can benefit from multilingual systems, especially those with insufficient training and evaluation data. In this paper, we revisit state-of-the-art Neural Machine Translation techniques to develop automatic translation systems between German and Bavarian. We investigate conditions of low-resource languages such as data scarcity and parameter sensitivity and focus on refined solutions that combat low-resource difficulties and creative solutions such as harnessing language similarity. Our experiment entails applying Back-translation and Transfer Learning to automatically generate more training data and achieve higher translation performance. We demonstrate noisiness in the data and present our approach to carry out text preprocessing extensively. Evaluation was conducted using combined metrics: BLEU, chrF and TER. Statistical significance results with Bonferroni correction show surprisingly high baseline systems, and that Back-translation leads to significant improvement. Furthermore, we present a qualitative analysis of translation errors and system limitations.

  • 2 authors
·
Apr 12, 2024

How to Evaluate Speech Translation with Source-Aware Neural MT Metrics

Automatic evaluation of speech-to-text translation (ST) systems is typically performed by comparing translation hypotheses with one or more reference translations. While effective to some extent, this approach inherits the limitation of reference-based evaluation that ignores valuable information from the source input. In machine translation (MT), recent progress has shown that neural metrics incorporating the source text achieve stronger correlation with human judgments. Extending this idea to ST, however, is not trivial because the source is audio rather than text, and reliable transcripts or alignments between source and references are often unavailable. In this work, we conduct the first systematic study of source-aware metrics for ST, with a particular focus on real-world operating conditions where source transcripts are not available. We explore two complementary strategies for generating textual proxies of the input audio, automatic speech recognition (ASR) transcripts, and back-translations of the reference translation, and introduce a novel two-step cross-lingual re-segmentation algorithm to address the alignment mismatch between synthetic sources and reference translations. Our experiments, carried out on two ST benchmarks covering 79 language pairs and six ST systems with diverse architectures and performance levels, show that ASR transcripts constitute a more reliable synthetic source than back-translations when word error rate is below 20%, while back-translations always represent a computationally cheaper but still effective alternative. Furthermore, our cross-lingual re-segmentation algorithm enables robust use of source-aware MT metrics in ST evaluation, paving the way toward more accurate and principled evaluation methodologies for speech translation.

  • 5 authors
·
Nov 5 2

A Machine Learning Approach for MIDI to Guitar Tablature Conversion

Guitar tablature transcription consists in deducing the string and the fret number on which each note should be played to reproduce the actual musical part. This assignment should lead to playable string-fret combinations throughout the entire track and, in general, preserve parsimonious motion between successive combinations. Throughout the history of guitar playing, specific chord fingerings have been developed across different musical styles that facilitate common idiomatic voicing combinations and motion between them. This paper presents a method for assigning guitar tablature notation to a given MIDI-based musical part (possibly consisting of multiple polyphonic tracks), i.e. no information about guitar-idiomatic expressional characteristics is involved (e.g. bending etc.) The current strategy is based on machine learning and requires a basic assumption about how much fingers can stretch on a fretboard; only standard 6-string guitar tuning is examined. The proposed method also examines the transcription of music pieces that was not meant to be played or could not possibly be played by a guitar (e.g. potentially a symphonic orchestra part), employing a rudimentary method for augmenting musical information and training/testing the system with artificial data. The results present interesting aspects about what the system can achieve when trained on the initial and augmented dataset, showing that the training with augmented data improves the performance even in simple, e.g. monophonic, cases. Results also indicate weaknesses and lead to useful conclusions about possible improvements.

  • 6 authors
·
Oct 12

Backtracing: Retrieving the Cause of the Query

Many online content portals allow users to ask questions to supplement their understanding (e.g., of lectures). While information retrieval (IR) systems may provide answers for such user queries, they do not directly assist content creators -- such as lecturers who want to improve their content -- identify segments that _caused_ a user to ask those questions. We introduce the task of backtracing, in which systems retrieve the text segment that most likely caused a user query. We formalize three real-world domains for which backtracing is important in improving content delivery and communication: understanding the cause of (a) student confusion in the Lecture domain, (b) reader curiosity in the News Article domain, and (c) user emotion in the Conversation domain. We evaluate the zero-shot performance of popular information retrieval methods and language modeling methods, including bi-encoder, re-ranking and likelihood-based methods and ChatGPT. While traditional IR systems retrieve semantically relevant information (e.g., details on "projection matrices" for a query "does projecting multiple times still lead to the same point?"), they often miss the causally relevant context (e.g., the lecturer states "projecting twice gets me the same answer as one projection"). Our results show that there is room for improvement on backtracing and it requires new retrieval approaches. We hope our benchmark serves to improve future retrieval systems for backtracing, spawning systems that refine content generation and identify linguistic triggers influencing user queries. Our code and data are open-sourced: https://github.com/rosewang2008/backtracing.

  • 5 authors
·
Mar 6, 2024 1

More efficient manual review of automatically transcribed tabular data

Machine learning methods have proven useful in transcribing historical data. However, results from even highly accurate methods require manual verification and correction. Such manual review can be time-consuming and expensive, therefore the objective of this paper was to make it more efficient. Previously, we used machine learning to transcribe 2.3 million handwritten occupation codes from the Norwegian 1950 census with high accuracy (97%). We manually reviewed the 90,000 (3%) codes with the lowest model confidence. We allocated those 90,000 codes to human reviewers, who used our annotation tool to review the codes. To assess reviewer agreement, some codes were assigned to multiple reviewers. We then analyzed the review results to understand the relationship between accuracy improvements and effort. Additionally, we interviewed the reviewers to improve the workflow. The reviewers corrected 62.8% of the labels and agreed with the model label in 31.9% of cases. About 0.2% of the images could not be assigned a label, while for 5.1% the reviewers were uncertain, or they assigned an invalid label. 9,000 images were independently reviewed by multiple reviewers, resulting in an agreement of 86.43% and disagreement of 8.96%. We learned that our automatic transcription is biased towards the most frequent codes, with a higher degree of misclassification for the lowest frequency codes. Our interview findings show that the reviewers did internal quality control and found our custom tool well-suited. So, only one reviewer is needed, but they should report uncertainty.

  • 5 authors
·
Jun 28, 2023

Exploiting Music Source Separation for Automatic Lyrics Transcription with Whisper

Automatic lyrics transcription (ALT) remains a challenging task in the field of music information retrieval, despite great advances in automatic speech recognition (ASR) brought about by transformer-based architectures in recent years. One of the major challenges in ALT is the high amplitude of interfering audio signals relative to conventional ASR due to musical accompaniment. Recent advances in music source separation have enabled automatic extraction of high-quality separated vocals, which could potentially improve ALT performance. However, the effect of source separation has not been systematically investigated in order to establish best practices for its use. This work examines the impact of source separation on ALT using Whisper, a state-of-the-art open source ASR model. We evaluate Whisper's performance on original audio, separated vocals, and vocal stems across short-form and long-form transcription tasks. For short-form, we suggest a concatenation method that results in a consistent reduction in Word Error Rate (WER). For long-form, we propose an algorithm using source separation as a vocal activity detector to derive segment boundaries, which results in a consistent reduction in WER relative to Whisper's native long-form algorithm. Our approach achieves state-of-the-art results for an open source system on the Jam-ALT long-form ALT benchmark, without any training or fine-tuning. We also publish MUSDB-ALT, the first dataset of long-form lyric transcripts following the Jam-ALT guidelines for which vocal stems are publicly available.

  • 4 authors
·
Jun 18

High-resolution Piano Transcription with Pedals by Regressing Onset and Offset Times

Automatic music transcription (AMT) is the task of transcribing audio recordings into symbolic representations. Recently, neural network-based methods have been applied to AMT, and have achieved state-of-the-art results. However, many previous systems only detect the onset and offset of notes frame-wise, so the transcription resolution is limited to the frame hop size. There is a lack of research on using different strategies to encode onset and offset targets for training. In addition, previous AMT systems are sensitive to the misaligned onset and offset labels of audio recordings. Furthermore, there are limited researches on sustain pedal transcription on large-scale datasets. In this article, we propose a high-resolution AMT system trained by regressing precise onset and offset times of piano notes. At inference, we propose an algorithm to analytically calculate the precise onset and offset times of piano notes and pedal events. We show that our AMT system is robust to the misaligned onset and offset labels compared to previous systems. Our proposed system achieves an onset F1 of 96.72% on the MAESTRO dataset, outperforming previous onsets and frames system of 94.80%. Our system achieves a pedal onset F1 score of 91.86\%, which is the first benchmark result on the MAESTRO dataset. We have released the source code and checkpoints of our work at https://github.com/bytedance/piano_transcription.

  • 5 authors
·
Oct 5, 2020

Single Image Backdoor Inversion via Robust Smoothed Classifiers

Backdoor inversion, the process of finding a backdoor trigger inserted into a machine learning model, has become the pillar of many backdoor detection and defense methods. Previous works on backdoor inversion often recover the backdoor through an optimization process to flip a support set of clean images into the target class. However, it is rarely studied and understood how large this support set should be to recover a successful backdoor. In this work, we show that one can reliably recover the backdoor trigger with as few as a single image. Specifically, we propose the SmoothInv method, which first constructs a robust smoothed version of the backdoored classifier and then performs guided image synthesis towards the target class to reveal the backdoor pattern. SmoothInv requires neither an explicit modeling of the backdoor via a mask variable, nor any complex regularization schemes, which has become the standard practice in backdoor inversion methods. We perform both quantitaive and qualitative study on backdoored classifiers from previous published backdoor attacks. We demonstrate that compared to existing methods, SmoothInv is able to recover successful backdoors from single images, while maintaining high fidelity to the original backdoor. We also show how we identify the target backdoored class from the backdoored classifier. Last, we propose and analyze two countermeasures to our approach and show that SmoothInv remains robust in the face of an adaptive attacker. Our code is available at https://github.com/locuslab/smoothinv .

  • 2 authors
·
Feb 28, 2023

HyPoradise: An Open Baseline for Generative Speech Recognition with Large Language Models

Advancements in deep neural networks have allowed automatic speech recognition (ASR) systems to attain human parity on several publicly available clean speech datasets. However, even state-of-the-art ASR systems experience performance degradation when confronted with adverse conditions, as a well-trained acoustic model is sensitive to variations in the speech domain, e.g., background noise. Intuitively, humans address this issue by relying on their linguistic knowledge: the meaning of ambiguous spoken terms is usually inferred from contextual cues thereby reducing the dependency on the auditory system. Inspired by this observation, we introduce the first open-source benchmark to utilize external large language models (LLMs) for ASR error correction, where N-best decoding hypotheses provide informative elements for true transcription prediction. This approach is a paradigm shift from the traditional language model rescoring strategy that can only select one candidate hypothesis as the output transcription. The proposed benchmark contains a novel dataset, HyPoradise (HP), encompassing more than 334,000 pairs of N-best hypotheses and corresponding accurate transcriptions across prevalent speech domains. Given this dataset, we examine three types of error correction techniques based on LLMs with varying amounts of labeled hypotheses-transcription pairs, which gains a significant word error rate (WER) reduction. Experimental evidence demonstrates the proposed technique achieves a breakthrough by surpassing the upper bound of traditional re-ranking based methods. More surprisingly, LLM with reasonable prompt and its generative capability can even correct those tokens that are missing in N-best list. We make our results publicly accessible for reproducible pipelines with released pre-trained models, thus providing a new evaluation paradigm for ASR error correction with LLMs.

  • 6 authors
·
Sep 27, 2023

Leveraging Broadcast Media Subtitle Transcripts for Automatic Speech Recognition and Subtitling

The recent advancement of speech recognition technology has been driven by large-scale datasets and attention-based architectures, but many challenges still remain, especially for low-resource languages and dialects. This paper explores the integration of weakly supervised transcripts from TV subtitles into automatic speech recognition (ASR) systems, aiming to improve both verbatim transcriptions and automatically generated subtitles. To this end, verbatim data and subtitles are regarded as different domains or languages, due to their distinct characteristics. We propose and compare several end-to-end architectures that are designed to jointly model both modalities with separate or shared encoders and decoders. The proposed methods are able to jointly generate a verbatim transcription and a subtitle. Evaluation on Flemish (Belgian Dutch) demonstrates that a model with cascaded encoders and separate decoders allows to represent the differences between the two data types most efficiently while improving on both domains. Despite differences in domain and linguistic variations, combining verbatim transcripts with subtitle data leads to notable ASR improvements without the need for extensive preprocessing. Additionally, experiments with a large-scale subtitle dataset show the scalability of the proposed approach. The methods not only improve ASR accuracy but also generate subtitles that closely match standard written text, offering several potential applications.

  • 2 authors
·
Feb 5

Reconstructing the Charlie Parker Omnibook using an audio-to-score automatic transcription pipeline

The Charlie Parker Omnibook is a cornerstone of jazz music education, described by pianist Ethan Iverson as "the most important jazz education text ever published". In this work we propose a new transcription pipeline and explore the extent to which state of the art music technology is able to reconstruct these scores directly from the audio without human intervention. Our pipeline includes: a newly trained source separation model for saxophone, a new MIDI transcription model for solo saxophone and an adaptation of an existing MIDI-to-score method for monophonic instruments. To assess this pipeline we also provide an enhanced dataset of Charlie Parker transcriptions as score-audio pairs with accurate MIDI alignments and downbeat annotations. This represents a challenging new benchmark for automatic audio-to-score transcription that we hope will advance research into areas beyond transcribing audio-to-MIDI alone. Together, these form another step towards producing scores that musicians can use directly, without the need for onerous corrections or revisions. To facilitate future research, all model checkpoints and data are made available to download along with code for the transcription pipeline. Improvements in our modular pipeline could one day make the automatic transcription of complex jazz solos a routine possibility, thereby enriching the resources available for music education and preservation.

  • 2 authors
·
May 26, 2024

Speech-to-LaTeX: New Models and Datasets for Converting Spoken Equations and Sentences

Conversion of spoken mathematical expressions is a challenging task that involves transcribing speech into a strictly structured symbolic representation while addressing the ambiguity inherent in the pronunciation of equations. Although significant progress has been achieved in automatic speech recognition (ASR) and language models (LM), the problem of converting spoken mathematics into LaTeX remains underexplored. This task directly applies to educational and research domains, such as lecture transcription or note creation. Based on ASR post-correction, prior work requires 2 transcriptions, focuses only on isolated equations, has a limited test set, and provides neither training data nor multilingual coverage. To address these issues, we present the first fully open-source large-scale dataset, comprising over 66,000 human-annotated audio samples of mathematical equations and sentences in both English and Russian, drawn from diverse scientific domains. In addition to the ASR post-correction models and few-shot prompting, we apply audio language models, demonstrating comparable character error rate (CER) results on the MathSpeech benchmark (28% vs. 30%) for the equations conversion. In contrast, on the proposed S2L-equations benchmark, our models outperform the MathSpeech model by a substantial margin of more than 40 percentage points, even after accounting for LaTeX formatting artifacts (27% vs. 64%). We establish the first benchmark for mathematical sentence recognition (S2L-sentences) and achieve an equation CER of 40%. This work lays the groundwork for future advances in multimodal AI, with a particular focus on mathematical content recognition.

  • 9 authors
·
Aug 5 2

The ParlaSpeech Collection of Automatically Generated Speech and Text Datasets from Parliamentary Proceedings

Recent significant improvements in speech and language technologies come both from self-supervised approaches over raw language data as well as various types of explicit supervision. To ensure high-quality processing of spoken data, the most useful type of explicit supervision is still the alignment between the speech signal and its corresponding text transcript, which is a data type that is not available for many languages. In this paper, we present our approach to building large and open speech-and-text-aligned datasets of less-resourced languages based on transcripts of parliamentary proceedings and their recordings. Our starting point are the ParlaMint comparable corpora of transcripts of parliamentary proceedings of 26 national European parliaments. In the pilot run on expanding the ParlaMint corpora with aligned publicly available recordings, we focus on three Slavic languages, namely Croatian, Polish, and Serbian. The main challenge of our approach is the lack of any global alignment between the ParlaMint texts and the available recordings, as well as the sometimes varying data order in each of the modalities, which requires a novel approach in aligning long sequences of text and audio in a large search space. The results of this pilot run are three high-quality datasets that span more than 5,000 hours of speech and accompanying text transcripts. Although these datasets already make a huge difference in the availability of spoken and textual data for the three languages, we want to emphasize the potential of the presented approach in building similar datasets for many more languages.

  • 3 authors
·
Sep 23, 2024

SLAM-AAC: Enhancing Audio Captioning with Paraphrasing Augmentation and CLAP-Refine through LLMs

Automated Audio Captioning (AAC) aims to generate natural textual descriptions for input audio signals. Recent progress in audio pre-trained models and large language models (LLMs) has significantly enhanced audio understanding and textual reasoning capabilities, making improvements in AAC possible. In this paper, we propose SLAM-AAC to further enhance AAC with paraphrasing augmentation and CLAP-Refine through LLMs. Our approach uses the self-supervised EAT model to extract fine-grained audio representations, which are then aligned with textual embeddings via lightweight linear layers. The caption generation LLM is efficiently fine-tuned using the LoRA adapter. Drawing inspiration from the back-translation method in machine translation, we implement paraphrasing augmentation to expand the Clotho dataset during pre-training. This strategy helps alleviate the limitation of scarce audio-text pairs and generates more diverse captions from a small set of audio clips. During inference, we introduce the plug-and-play CLAP-Refine strategy to fully exploit multiple decoding outputs, akin to the n-best rescoring strategy in speech recognition. Using the CLAP model for audio-text similarity calculation, we could select the textual descriptions generated by multiple searching beams that best match the input audio. Experimental results show that SLAM-AAC achieves state-of-the-art performance on Clotho V2 and AudioCaps, surpassing previous mainstream models.

  • 8 authors
·
Oct 12, 2024

Exploring Backdoor Vulnerabilities of Chat Models

Recent researches have shown that Large Language Models (LLMs) are susceptible to a security threat known as Backdoor Attack. The backdoored model will behave well in normal cases but exhibit malicious behaviours on inputs inserted with a specific backdoor trigger. Current backdoor studies on LLMs predominantly focus on instruction-tuned LLMs, while neglecting another realistic scenario where LLMs are fine-tuned on multi-turn conversational data to be chat models. Chat models are extensively adopted across various real-world scenarios, thus the security of chat models deserves increasing attention. Unfortunately, we point out that the flexible multi-turn interaction format instead increases the flexibility of trigger designs and amplifies the vulnerability of chat models to backdoor attacks. In this work, we reveal and achieve a novel backdoor attacking method on chat models by distributing multiple trigger scenarios across user inputs in different rounds, and making the backdoor be triggered only when all trigger scenarios have appeared in the historical conversations. Experimental results demonstrate that our method can achieve high attack success rates (e.g., over 90% ASR on Vicuna-7B) while successfully maintaining the normal capabilities of chat models on providing helpful responses to benign user requests. Also, the backdoor can not be easily removed by the downstream re-alignment, highlighting the importance of continued research and attention to the security concerns of chat models. Warning: This paper may contain toxic content.

  • 3 authors
·
Apr 2, 2024

The unreasonable effectiveness of few-shot learning for machine translation

We demonstrate the potential of few-shot translation systems, trained with unpaired language data, for both high and low-resource language pairs. We show that with only 5 examples of high-quality translation data shown at inference, a transformer decoder-only model trained solely with self-supervised learning, is able to match specialized supervised state-of-the-art models as well as more general commercial translation systems. In particular, we outperform the best performing system on the WMT'21 English - Chinese news translation task by only using five examples of English - Chinese parallel data at inference. Moreover, our approach in building these models does not necessitate joint multilingual training or back-translation, is conceptually simple and shows the potential to extend to the multilingual setting. Furthermore, the resulting models are two orders of magnitude smaller than state-of-the-art language models. We then analyze the factors which impact the performance of few-shot translation systems, and highlight that the quality of the few-shot demonstrations heavily determines the quality of the translations generated by our models. Finally, we show that the few-shot paradigm also provides a way to control certain attributes of the translation -- we show that we are able to control for regional varieties and formality using only a five examples at inference, paving the way towards controllable machine translation systems.

  • 8 authors
·
Feb 2, 2023

BT^2: Backward-compatible Training with Basis Transformation

Modern retrieval system often requires recomputing the representation of every piece of data in the gallery when updating to a better representation model. This process is known as backfilling and can be especially costly in the real world where the gallery often contains billions of samples. Recently, researchers have proposed the idea of Backward Compatible Training (BCT) where the new representation model can be trained with an auxiliary loss to make it backward compatible with the old representation. In this way, the new representation can be directly compared with the old representation, in principle avoiding the need for any backfilling. However, followup work shows that there is an inherent tradeoff where a backward compatible representation model cannot simultaneously maintain the performance of the new model itself. This paper reports our ``not-so-surprising'' finding that adding extra dimensions to the representation can help here. However, we also found that naively increasing the dimension of the representation did not work. To deal with this, we propose Backward-compatible Training with a novel Basis Transformation (BT^2). A basis transformation (BT) is basically a learnable set of parameters that applies an orthonormal transformation. Such a transformation possesses an important property whereby the original information contained in its input is retained in its output. We show in this paper how a BT can be utilized to add only the necessary amount of additional dimensions. We empirically verify the advantage of BT^2 over other state-of-the-art methods in a wide range of settings. We then further extend BT^2 to other challenging yet more practical settings, including significant change in model architecture (CNN to Transformers), modality change, and even a series of updates in the model architecture mimicking the evolution of deep learning models.

  • 7 authors
·
Nov 7, 2022

Development of a Large-scale Dataset of Chest Computed Tomography Reports in Japanese and a High-performance Finding Classification Model

Background: Recent advances in large language models highlight the need for high-quality multilingual medical datasets. While Japan leads globally in CT scanner deployment and utilization, the lack of large-scale Japanese radiology datasets has hindered the development of specialized language models for medical imaging analysis. Objective: To develop a comprehensive Japanese CT report dataset through machine translation and establish a specialized language model for structured finding classification. Additionally, to create a rigorously validated evaluation dataset through expert radiologist review. Methods: We translated the CT-RATE dataset (24,283 CT reports from 21,304 patients) into Japanese using GPT-4o mini. The training dataset consisted of 22,778 machine-translated reports, while the validation dataset included 150 radiologist-revised reports. We developed CT-BERT-JPN based on "tohoku-nlp/bert-base-japanese-v3" architecture for extracting 18 structured findings from Japanese radiology reports. Results: Translation metrics showed strong performance with BLEU scores of 0.731 and 0.690, and ROUGE scores ranging from 0.770 to 0.876 for Findings and from 0.748 to 0.857 for Impression sections. CT-BERT-JPN demonstrated superior performance compared to GPT-4o in 11 out of 18 conditions, including lymphadenopathy (+14.2%), interlobular septal thickening (+10.9%), and atelectasis (+7.4%). The model maintained F1 scores exceeding 0.95 in 14 out of 18 conditions and achieved perfect scores in four conditions. Conclusions: Our study establishes a robust Japanese CT report dataset and demonstrates the effectiveness of a specialized language model for structured finding classification. The hybrid approach of machine translation and expert validation enables the creation of large-scale medical datasets while maintaining high quality.

  • 10 authors
·
Dec 20, 2024

ESB: A Benchmark For Multi-Domain End-to-End Speech Recognition

Speech recognition applications cover a range of different audio and text distributions, with different speaking styles, background noise, transcription punctuation and character casing. However, many speech recognition systems require dataset-specific tuning (audio filtering, punctuation removal and normalisation of casing), therefore assuming a-priori knowledge of both the audio and text distributions. This tuning requirement can lead to systems failing to generalise to other datasets and domains. To promote the development of multi-domain speech systems, we introduce the End-to-end Speech Benchmark (ESB) for evaluating the performance of a single automatic speech recognition (ASR) system across a broad set of speech datasets. Benchmarked systems must use the same data pre- and post-processing algorithm across datasets - assuming the audio and text data distributions are a-priori unknown. We compare a series of state-of-the-art (SoTA) end-to-end (E2E) systems on this benchmark, demonstrating how a single speech system can be applied and evaluated on a wide range of data distributions. We find E2E systems to be effective across datasets: in a fair comparison, E2E systems achieve within 2.6% of SoTA systems tuned to a specific dataset. Our analysis reveals that transcription artefacts, such as punctuation and casing, pose difficulties for ASR systems and should be included in evaluation. We believe E2E benchmarking over a range of datasets promotes the research of multi-domain speech recognition systems. ESB is available at https://huggingface.co/esb.

  • 3 authors
·
Oct 24, 2022 1

BEACON: Benchmark for Comprehensive RNA Tasks and Language Models

RNA plays a pivotal role in translating genetic instructions into functional outcomes, underscoring its importance in biological processes and disease mechanisms. Despite the emergence of numerous deep learning approaches for RNA, particularly universal RNA language models, there remains a significant lack of standardized benchmarks to assess the effectiveness of these methods. In this study, we introduce the first comprehensive RNA benchmark BEACON (BEnchmArk for COmprehensive RNA Task and Language Models). First, BEACON comprises 13 distinct tasks derived from extensive previous work covering structural analysis, functional studies, and engineering applications, enabling a comprehensive assessment of the performance of methods on various RNA understanding tasks. Second, we examine a range of models, including traditional approaches like CNNs, as well as advanced RNA foundation models based on language models, offering valuable insights into the task-specific performances of these models. Third, we investigate the vital RNA language model components from the tokenizer and positional encoding aspects. Notably, our findings emphasize the superiority of single nucleotide tokenization and the effectiveness of Attention with Linear Biases (ALiBi) over traditional positional encoding methods. Based on these insights, a simple yet strong baseline called BEACON-B is proposed, which can achieve outstanding performance with limited data and computational resources. The datasets and source code of our benchmark are available at https://github.com/terry-r123/RNABenchmark.

  • 13 authors
·
Jun 14, 2024

BART: Denoising Sequence-to-Sequence Pre-training for Natural Language Generation, Translation, and Comprehension

We present BART, a denoising autoencoder for pretraining sequence-to-sequence models. BART is trained by (1) corrupting text with an arbitrary noising function, and (2) learning a model to reconstruct the original text. It uses a standard Tranformer-based neural machine translation architecture which, despite its simplicity, can be seen as generalizing BERT (due to the bidirectional encoder), GPT (with the left-to-right decoder), and many other more recent pretraining schemes. We evaluate a number of noising approaches, finding the best performance by both randomly shuffling the order of the original sentences and using a novel in-filling scheme, where spans of text are replaced with a single mask token. BART is particularly effective when fine tuned for text generation but also works well for comprehension tasks. It matches the performance of RoBERTa with comparable training resources on GLUE and SQuAD, achieves new state-of-the-art results on a range of abstractive dialogue, question answering, and summarization tasks, with gains of up to 6 ROUGE. BART also provides a 1.1 BLEU increase over a back-translation system for machine translation, with only target language pretraining. We also report ablation experiments that replicate other pretraining schemes within the BART framework, to better measure which factors most influence end-task performance.

  • 8 authors
·
Oct 29, 2019 1

REBORN: Reinforcement-Learned Boundary Segmentation with Iterative Training for Unsupervised ASR

Unsupervised automatic speech recognition (ASR) aims to learn the mapping between the speech signal and its corresponding textual transcription without the supervision of paired speech-text data. A word/phoneme in the speech signal is represented by a segment of speech signal with variable length and unknown boundary, and this segmental structure makes learning the mapping between speech and text challenging, especially without paired data. In this paper, we propose REBORN, Reinforcement-Learned Boundary Segmentation with Iterative Training for Unsupervised ASR. REBORN alternates between (1) training a segmentation model that predicts the boundaries of the segmental structures in speech signals and (2) training the phoneme prediction model, whose input is a segmental structure segmented by the segmentation model, to predict a phoneme transcription. Since supervised data for training the segmentation model is not available, we use reinforcement learning to train the segmentation model to favor segmentations that yield phoneme sequence predictions with a lower perplexity. We conduct extensive experiments and find that under the same setting, REBORN outperforms all prior unsupervised ASR models on LibriSpeech, TIMIT, and five non-English languages in Multilingual LibriSpeech. We comprehensively analyze why the boundaries learned by REBORN improve the unsupervised ASR performance.

  • 7 authors
·
Feb 6, 2024

BMFM-DNA: A SNP-aware DNA foundation model to capture variant effects

Large language models (LLMs) trained on text demonstrated remarkable results on natural language processing (NLP) tasks. These models have been adapted to decipher the language of DNA, where sequences of nucleotides act as "words" that encode genomic functions. However, the genome differs fundamentally from natural language, as it lacks clearly defined words or a consistent grammar. Although DNA language models (DNALMs) such as DNABERT, GENA-LM have achieved high level of performance on genome-related biological tasks, these models do not encode biological functions in the presence of sequence variations. To address this problem, we pre-train foundation models that effectively integrate sequence variations, in particular Single Nucleotide Polymorphisms (SNPs), as they underlie important biological functions. Specifically, we use ModernBERT to pre-train two different Biomedical Foundation Models (BMFM), namely, BMFM-DNA-REF in which the model is trained with sequences of varying lengths along with their reverse complements derived from the reference genome and BMFM-DNA-SNP in which the model is trained with sequences created using a novel representation scheme that encodes sequence variations. Our findings indicate that integrating sequence variations into DNALMs helps capture the biological functions as seen in improvements on all fine-tuning tasks. To explore the model's practical utility, we experimented with various strategies for SNP imputation on promoter detection task introduced in DNABERT-2. However, we acknowledge that the current benchmarks are limited in their ability to fully evaluate these models. To enable more comprehensive assessment in the future and encourage community contributions, we release our models through HuggingFace and the code to reproduce the results at https://github.com/BiomedSciAI/biomed-multi-omic

ibm-research IBM Research
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Jun 26

BMFM-RNA: An Open Framework for Building and Evaluating Transcriptomic Foundation Models

Transcriptomic foundation models (TFMs) have recently emerged as powerful tools for analyzing gene expression in cells and tissues, supporting key tasks such as cell-type annotation, batch correction, and perturbation prediction. However, the diversity of model implementations and training strategies across recent TFMs, though promising, makes it challenging to isolate the contribution of individual design choices or evaluate their potential synergies. This hinders the field's ability to converge on best practices and limits the reproducibility of insights across studies. We present BMFM-RNA, an open-source, modular software package that unifies diverse TFM pretraining and fine-tuning objectives within a single framework. Leveraging this capability, we introduce a novel training objective, whole cell expression decoder (WCED), which captures global expression patterns using an autoencoder-like CLS bottleneck representation. In this paper, we describe the framework, supported input representations, and training objectives. We evaluated four model checkpoints pretrained on CELLxGENE using combinations of masked language modeling (MLM), WCED and multitask learning. Using the benchmarking capabilities of BMFM-RNA, we show that WCED-based models achieve performance that matches or exceeds state-of-the-art approaches like scGPT across more than a dozen datasets in both zero-shot and fine-tuning tasks. BMFM-RNA, available as part of the biomed-multi-omics project ( https://github.com/BiomedSciAI/biomed-multi-omic ), offers a reproducible foundation for systematic benchmarking and community-driven exploration of optimal TFM training strategies, enabling the development of more effective tools to leverage the latest advances in AI for understanding cell biology.

ibm-research IBM Research
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Jun 17

Iterative pseudo-forced alignment by acoustic CTC loss for self-supervised ASR domain adaptation

High-quality data labeling from specific domains is costly and human time-consuming. In this work, we propose a self-supervised domain adaptation method, based upon an iterative pseudo-forced alignment algorithm. The produced alignments are employed to customize an end-to-end Automatic Speech Recognition (ASR) and iteratively refined. The algorithm is fed with frame-wise character posteriors produced by a seed ASR, trained with out-of-domain data, and optimized throughout a Connectionist Temporal Classification (CTC) loss. The alignments are computed iteratively upon a corpus of broadcast TV. The process is repeated by reducing the quantity of text to be aligned or expanding the alignment window until finding the best possible audio-text alignment. The starting timestamps, or temporal anchors, are produced uniquely based on the confidence score of the last aligned utterance. This score is computed with the paths of the CTC-alignment matrix. With this methodology, no human-revised text references are required. Alignments from long audio files with low-quality transcriptions, like TV captions, are filtered out by confidence score and ready for further ASR adaptation. The obtained results, on both the Spanish RTVE2022 and CommonVoice databases, underpin the feasibility of using CTC-based systems to perform: highly accurate audio-text alignments, domain adaptation and semi-supervised training of end-to-end ASR.

  • 2 authors
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Oct 27, 2022

SpeechTaxi: On Multilingual Semantic Speech Classification

Recent advancements in multilingual speech encoding as well as transcription raise the question of the most effective approach to semantic speech classification. Concretely, can (1) end-to-end (E2E) classifiers obtained by fine-tuning state-of-the-art multilingual speech encoders (MSEs) match or surpass the performance of (2) cascading (CA), where speech is first transcribed into text and classification is delegated to a text-based classifier. To answer this, we first construct SpeechTaxi, an 80-hour multilingual dataset for semantic speech classification of Bible verses, covering 28 diverse languages. We then leverage SpeechTaxi to conduct a wide range of experiments comparing E2E and CA in monolingual semantic speech classification as well as in cross-lingual transfer. We find that E2E based on MSEs outperforms CA in monolingual setups, i.e., when trained on in-language data. However, MSEs seem to have poor cross-lingual transfer abilities, with E2E substantially lagging CA both in (1) zero-shot transfer to languages unseen in training and (2) multilingual training, i.e., joint training on multiple languages. Finally, we devise a novel CA approach based on transcription to Romanized text as a language-agnostic intermediate representation and show that it represents a robust solution for languages without native ASR support. Our SpeechTaxi dataset is publicly available at: https://huggingface.co/ datasets/LennartKeller/SpeechTaxi/.

  • 2 authors
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Sep 10, 2024