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Researcher profile

Babak Taati

Babak Taati contributes to research discovery and scholarly infrastructure.

ResearcherAffiliation not importedOpen to collaborate
Computer VisionArtificial IntelligenceMachine Learningeess.IVeess.ASeess.SPNeural and Evolutionary ComputingSound

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Published work

9 published item(s)

preprint2026arXiv

GEAR: Genetic AutoResearch for Agentic Code Evolution

Autonomous research agents can already run machine learning experiments without human supervision, but many rely on a narrow search strategy: they repeatedly modify one program and keep changes only when they improve the current best result. This can cause them to discard useful partial ideas, alternative promising directions, and insights from failed or incomplete experiments. GEAR, or Genetic AutoResearch, replaces this single-path search with a population-based search over multiple research states. It keeps a set of strong candidate solutions, selects parents based on productivity, novelty, and coverage, and explores new ideas through mutation and crossover. Each research state stores its code changes, reflections, and performance data, allowing future decisions to build on past discoveries. The paper studies three versions of GEAR: one controlled through prompting, one using a fixed programmatic search controller, and one where the controller itself can evolve during the run. Under the same compute budget and environment, all three versions outperform the AutoResearch baseline. More importantly, while the baseline tends to settle into one local optimum, GEAR continues finding improvements over longer runs. Overall, the results suggest that autonomous research agents become more effective when they maintain multiple promising directions and can adapt their search strategy over time.

0 citations0 reviewsNo code linkedOpen access
preprint2026arXiv

Leveraging Clinical Text and Class Conditioning for 3D Prostate MRI Generation

Objective: Latent diffusion models (LDM) could alleviate data scarcity challenges affecting machine learning development for medical imaging. However, medical LDM strategies typically rely on short-prompt text encoders, nonmedical LDMs, or large data volumes. These strategies can limit performance and scientific accessibility. We propose a novel LDM conditioning approach to address these limitations. Methods: We propose Class-Conditioned Efficient Large Language model Adapter (CCELLA), a novel dual-head conditioning approach that simultaneously conditions the LDM U-Net with free-text clinical reports and radiology classification. We also propose a data-efficient LDM pipeline centered around CCELLA and a proposed joint loss function. We first evaluate our method on 3D prostate MRI against state-of-the-art. We then augment a downstream classifier model training dataset with synthetic images from our method. Results: Our method achieves a 3D FID score of 0.025 on a size-limited 3D prostate MRI dataset, significantly outperforming a recent foundation model with FID 0.070. When training a classifier for prostate cancer prediction, adding synthetic images generated by our method during training improves classifier accuracy from 69% to 74% and outperforms classifiers trained on images generated by prior state-of-the-art. Classifier training solely on our method's synthetic images achieved comparable performance to real image training. Conclusion: We show that our method improved both synthetic image quality and downstream classifier performance using limited data and minimal human annotation. Significance: The proposed CCELLA-centric pipeline enables radiology report and class-conditioned LDM training for high-quality medical image synthesis given limited data volume and human data annotation, improving LDM performance and scientific accessibility.

0 citations0 reviewsNo code linkedOpen access
preprint2026arXiv

LiBaGS: Lightweight Boundary Gap Synthesis for Targeted Synthetic Data Selection

Synthetic data is useful only when the added samples fill missing parts of the training distribution that matter for the downstream task. We introduce LiBaGS, a lightweight, generator-agnostic method for targeted synthetic training data selection. LiBaGS scores candidate synthetic samples by combining decision-boundary proximity, predictive uncertainty, real-data density, and support validity, so that selected samples are both informative and likely to remain on the real data manifold. We then use a boundary-gap allocation rule that targets sparse but realistic decision-boundary neighborhoods, rather than simply adding more data or selecting only the most uncertain candidates. LiBaGS also learns when enough synthetic samples have been added through a marginal-value stopping rule, assigns softer labels near ambiguous boundaries, and uses a diversity objective to avoid redundant near-duplicate selections. Experiments show that LiBaGS improves accuracy over classical oversampling, hard augmentation, uncertainty and density ablations, and targeted-generation selection criteria.

0 citations0 reviewsNo code linkedOpen access
preprint2026arXiv

Pain in 3D: Generating Controllable Synthetic Faces for Automated Pain Assessment

Automated pain assessment from facial expressions is crucial for non-communicative patients, such as those with dementia. Progress has been limited by two challenges: (i) existing datasets exhibit severe demographic and label imbalance due to ethical constraints, and (ii) current generative models cannot precisely control facial action units (AUs), facial structure, or clinically validated pain levels. We present 3DPain, a large-scale synthetic dataset specifically designed for automated pain assessment, featuring unprecedented annotation richness and demographic diversity. Our three-stage framework generates diverse 3D meshes, textures them with diffusion models, and applies AU-driven face rigging to synthesize multi-view faces with paired neutral and pain images, AU configurations, PSPI scores, and the first dataset-level annotations of pain-region heatmaps. The dataset comprises 82,500 samples across 25,000 pain expression heatmaps and 2,500 synthetic identities balanced by age, gender, and ethnicity. We further introduce ViTPain, a Vision Transformer based cross-modal distillation framework in which a heatmap-trained teacher guides a student trained on RGB images, enhancing accuracy, interpretability, and clinical reliability. Together, 3DPain and ViTPain establish a controllable, diverse, and clinically grounded foundation for generalizable automated pain assessment.

0 citations0 reviewsNo code linkedOpen access
preprint2022arXiv

Automated Temporal Segmentation of Orofacial Assessment Videos

Computer vision techniques can help automate or partially automate clinical examination of orofacial impairments to provide accurate and objective assessments. Towards the development of such automated systems, we evaluated two approaches to detect and temporally segment (parse) repetitions in orofacial assessment videos. Recorded videos of participants with amyotrophic lateral sclerosis (ALS) and healthy control (HC) individuals were obtained from the Toronto NeuroFace Dataset. Two approaches for repetition detection and parsing were examined: one based on engineered features from tracked facial landmarks and peak detection in the distance between the vermilion-cutaneous junction of the upper and lower lips (baseline analysis), and another using a pre-trained transformer-based deep learning model called RepNet (Dwibedi et al, 2020), which automatically detects periodicity, and parses periodic and semi-periodic repetitions in video data. In experimental evaluation of two orofacial assessments tasks, - repeating maximum mouth opening (OPEN) and repeating the sentence "Buy Bobby a Puppy" (BBP) - RepNet provided better parsing than the landmark-based approach, quantified by higher mean intersection-over-union (IoU) with respect to ground truth manual parsing. Automated parsing using RepNet also clearly separated HC and ALS participants based on the duration of BBP repetitions, whereas the landmark-based method could not.

0 citations0 reviewsNo code linkedOpen access
preprint2022arXiv

Concurrent Validity of Automatic Speech and Pause Measures During Passage Reading in ALS

The analysis of speech measures in individuals with amyotrophic lateral sclerosis (ALS) can provide essential information for early diagnosis and tracking disease progression. However, current methods for extracting speech and pause features are manual or semi-automatic, which makes them time-consuming and labour-intensive. The advent of speech-text alignment algorithms provides an opportunity for inexpensive, automated, and accurate analysis of speech measures in individuals with ALS. There is a need to validate speech and pause features calculated by these algorithms against current gold standard methods. In this study, we extracted 8 speech/pause features from 646 audio files of individuals with ALS and healthy controls performing passage reading. Two pretrained forced alignment models - one using transformers and another using a Gaussian mixture / hidden Markov architecture - were used for automatic feature extraction. The results were then validated against semi-automatic speech/pause analysis software, with further subgroup analyses based on audio quality and disease severity. Features extracted using transformer-based forced alignment had the highest agreement with gold standards, including in terms of audio quality and disease severity. This study lays the groundwork for future intelligent diagnostic support systems for clinicians, and for novel methods of tracking disease progression remotely from home.

0 citations0 reviewsNo code linkedOpen access
preprint2021arXiv

Unobtrusive Pain Monitoring in Older Adults with Dementia using Pairwise and Contrastive Training

Although pain is frequent in old age, older adults are often undertreated for pain. This is especially the case for long-term care residents with moderate to severe dementia who cannot report their pain because of cognitive impairments that accompany dementia. Nursing staff acknowledge the challenges of effectively recognizing and managing pain in long-term care facilities due to lack of human resources and, sometimes, expertise to use validated pain assessment approaches on a regular basis. Vision-based ambient monitoring will allow for frequent automated assessments so care staff could be automatically notified when signs of pain are displayed. However, existing computer vision techniques for pain detection are not validated on faces of older adults or people with dementia, and this population is not represented in existing facial expression datasets of pain. We present the first fully automated vision-based technique validated on a dementia cohort. Our contributions are threefold. First, we develop a deep learning-based computer vision system for detecting painful facial expressions on a video dataset that is collected unobtrusively from older adult participants with and without dementia. Second, we introduce a pairwise comparative inference method that calibrates to each person and is sensitive to changes in facial expression while using training data more efficiently than sequence models. Third, we introduce a fast contrastive training method that improves cross-dataset performance. Our pain estimation model outperforms baselines by a wide margin, especially when evaluated on faces of people with dementia. Pre-trained model and demo code available at https://github.com/TaatiTeam/pain_detection_demo

0 citations0 reviewsNo code linkedOpen access
preprint2020arXiv

Estimation of Orofacial Kinematics in Parkinson's Disease: Comparison of 2D and 3D Markerless Systems for Motion Tracking

Orofacial deficits are common in people with Parkinson's disease (PD) and their evolution might represent an important biomarker of disease progression. We are developing an automated system for assessment of orofacial function in PD that can be used in-home or in-clinic and can provide useful and objective clinical information that informs disease management. Our current approach relies on color and depth cameras for the estimation of 3D facial movements. However, depth cameras are not commonly available, might be expensive, and require specialized software for control and data processing. The objective of this paper was to evaluate if depth cameras are needed to differentiate between healthy controls and PD patients based on features extracted from orofacial kinematics. Results indicate that 2D features, extracted from color cameras only, are as informative as 3D features, extracted from color and depth cameras, differentiating healthy controls from PD patients. These results pave the way for the development of a universal system for automatic and objective assessment of orofacial function in PD.

0 citations0 reviewsNo code linkedOpen access
preprint2019arXiv

Toward an Automatic System for Computer-Aided Assessment in Facial Palsy

Importance: Machine learning (ML) approaches to facial landmark localization carry great clinical potential for quantitative assessment of facial function as they enable high-throughput automated quantification of relevant facial metrics from photographs. However, translation from research settings to clinical applications requires important improvements. Objective: To develop an ML algorithm for accurate facial landmarks localization in photographs of facial palsy patients, and use it as part of an automated computer-aided diagnosis system. Design, Setting, and Participants: Facial landmarks were manually localized in portrait photographs of eight expressions obtained from 200 facial palsy patients and 10 controls. A novel ML model for automated facial landmark localization was trained using this disease-specific database. Model output was compared to manual annotations and the output of a model trained using a larger database consisting only of healthy subjects. Model accuracy was evaluated by the normalized root mean square error (NRMSE) between algorithms&#39; prediction and manual annotations. Results: Publicly available algorithms provide poor results when applied to patients compared to healthy controls (NRMSE, 8.56 +/- 2.16 vs. 7.09 +/- 2.34, p << 0.01). We found significant improvement in facial landmark localization accuracy for the clinical population when using a model trained with a relatively small number patients&#39; photographs (1440) compared to a model trained using several thousand more images of healthy faces (NRMSE, 6.03 +/- 2.43 vs. 8.56 +/- 2.16, p << 0.01). Conclusions: Retraining a landmark detection model with a small number of clinical images significantly improved landmark detection performance in frontal view photographs of the clinical population. These results represent the first steps towards an automatic system for computer-aided assessment in facial palsy.

0 citations0 reviewsNo code linkedOpen access