Miracle-dz/UniFAR-FTUs huggingface dataset:
Comparing Entrustable Professional Activity Scores Given by Faculty Physicians and Senior Trainees to First-Year Residents

Introduction Competency by Design (CBD) began on July 1, 2019, for postgraduate year 1 (PGY1) Canadian Core Internal Medicine (CIM) residents. Many entrustable professional activity (EPA) observations allow for assessment by either a faculty physician, senior medicine resident (SMR), or subspecialty resident (SSR). However, few studies exist that compare EPA scores and comments given by faculty vs senior trainees (SMRs and SSRs). This study aimed to identify differences in EPA scores and comments given to PGY1 residents by faculty physicians vs senior trainees. Methods Scores and comments of EPAs completed between July 1, 2019, and June 30, 2020, for 35 CIM PGY1 residents were extracted anonymously from the University of Alberta CBD platform. Scores from faculty vs senior trainees were compared with the Mann-Whitney U test and the Kruskal-Wallis test. Word counts for positive and constructive comments written by faculty vs senior trainees were compared with the independent t-test and one-way ANOVA. The most common two-word phrases in comments were identified with QI Macros software (Denver, CO: KnowWare International, Inc.). Results A total of 2226 EPAs were observed. Faculty physicians gave significantly lower EPA scores overall compared to senior trainees (U = 501706, P <0.001). Constructive comments written by faculty (M = 14.06, SD = 16.84) had lower word counts compared to senior trainees (M = 15.85, SD = 16.43) for overall EPAs (t{2224} = -2.528, P = 0.012). Conclusion Faculty physicians gave lower EPA scores and had lower word counts on constructive comments, compared to senior trainees. These results may help the ongoing implementation of Competence by Design.
Forming Trees with Treeformers

Human language is known to exhibit a nested, hierarchical structure, allowing us to form complex sentences out of smaller pieces. However, many state-of-the-art neural networks models such as Transformers have no explicit hierarchical structure in their architecture—that is, they don’t have an inductive bias toward hierarchical structure. Additionally, Transformers are known to perform poorly on compositional generalization tasks which require such structures. In this paper, we introduce Treeformer, a general-purpose encoder module inspired by the CKY algorithm which learns a composition operator and pooling function to construct hierarchical encodings for phrases and sentences. Our extensive experiments demonstrate the benefits of incorporating hierarchical structure into the Transformer and show significant improvements in compositional generalization as well as in downstream tasks such as machine translation, abstractive summarization, and various natural language understanding tasks.
Kinetic field theory: perturbation theory beyond first order

We present recent improvements in the perturbative treatment of particle interactions in Kinetic Field Theory (KFT) for inertial Zel'dovich trajectories. KFT has been developed for the systematic analytical calculation of non-linear cosmic structure formation on the basis of microscopic phase-space dynamics. We improve upon the existing treatment of the interaction operator by deriving a more rigorous treatment of phase-space trajectories of particles in an expanding universe. We then show how these results can be applied to KFT perturbation theory by calculating corrections to the late-time dark matter power spectrum at second order in the interaction operator. We find that the modified treatment of interactions w.r. t. inertial Zel'dovich trajectories improves the agreement of KFT with simulation results on intermediate scales compared to earlier results. Additionally, we illustrate that including particle interactions up to second order leads to a systematic improvement of the non-linear power spectrum compared to the first-order result.
Learning to translate by learning to communicate

We formulate and test a technique to use Emergent Communication (EC) with a pre-trained multilingual model to improve on modern Unsupervised NMT systems, especially for low-resource languages. It has been argued that the current dominant paradigm in NLP of pre-training on text-only corpora will not yield robust natural language understanding systems, and the need for grounded, goal-oriented, and interactive language learning has been high lighted. In our approach, we embed a multilingual model (mBART, Liu et al., 2020) into an EC image-reference game, in which the model is incentivized to use multilingual generations to accomplish a vision-grounded task. The hypothesis is that this will align multiple languages to a shared task space. We present two variants of EC Fine-Tuning (Steinert-Threlkeld et al., 2022), one of which outperforms a backtranslation-only baseline in all four languages investigated, including the low-resource language Nepali.
High Dimensional Generalised Penalised Least Squares

In this paper we develop inference for high dimensional linear models, with serially correlated errors. We examine Lasso under the assumption of strong mixing in the covariates and error process, allowing for fatter tails in their distribution. While the Lasso estimator performs poorly under such circumstances, we estimate via GLS Lasso the parameters of interest and extend the asymptotic properties of the Lasso under more general conditions. Our theoretical results indicate that the non-asymptotic bounds for stationary dependent processes are sharper, while the rate of Lasso under general conditions appears slower as $T,p\to \infty$. Further we employ the debiased Lasso to perform inference uniformly on the parameters of interest. Monte Carlo results support the proposed estimator, as it has significant efficiency gains over traditional methods.
Antibody-Antigen Docking and Design via Hierarchical Equivariant Refinement

Computational antibody design seeks to automatically create an antibody that binds to an antigen. The binding affinity is governed by the 3D binding interface where antibody residues (paratope) closely interact with antigen residues (epitope). Thus, predicting 3D paratope-epitope complex (docking) is the key to finding the best paratope. In this paper, we propose a new model called Hierarchical Equivariant Refinement Network (HERN) for paratope docking and design. During docking, HERN employs a hierarchical message passing network to predict atomic forces and use them to refine a binding complex in an iterative, equivariant manner. During generation, its autoregressive decoder progressively docks generated paratopes and builds a geometric representation of the binding interface to guide the next residue choice. Our results show that HERN significantly outperforms prior state-of-the-art on paratope docking and design benchmarks.
TRIE++: Towards End-to-End Information Extraction from Visually Rich Documents

Recently, automatically extracting information from visually rich documents (e.g., tickets and resumes) has become a hot and vital research topic due to its widespread commercial value. Most existing methods divide this task into two subparts: the text reading part for obtaining the plain text from the original document images and the information extraction part for extracting key contents. These methods mainly focus on improving the second, while neglecting that the two parts are highly correlated. This paper proposes a unified end-to-end information extraction framework from visually rich documents, where text reading and information extraction can reinforce each other via a well-designed multi-modal context block. Specifically, the text reading part provides multi-modal features like visual, textual and layout features. The multi-modal context block is developed to fuse the generated multi-modal features and even the prior knowledge from the pre-trained language model for better semantic representation. The information extraction part is responsible for generating key contents with the fused context features. The framework can be trained in an end-to-end trainable manner, achieving global optimization. What is more, we define and group visually rich documents into four categories across two dimensions, the layout and text type. For each document category, we provide or recommend the corresponding benchmarks, experimental settings and strong baselines for remedying the problem that this research area lacks the uniform evaluation standard. Extensive experiments on four kinds of benchmarks (from fixed layout to variable layout, from full-structured text to semi-unstructured text) are reported, demonstrating the proposed method's effectiveness. Data, source code and models are available.
Fine-grained Few-shot Recognition by Deep Object Parsing

We propose a new method for fine-grained few-shot recognition via deep object parsing. In our framework, an object is made up of K distinct parts and for each part, we learn a dictionary of templates, which is shared across all instances and categories. An object is parsed by estimating the locations of these K parts and a set of active templates that can reconstruct the part features. We recognize test instances by comparing its active templates and the relative geometry of its part locations against those of the presented few-shot instances. Our method is end-to-end trainable to learn part templates on-top of a convolutional backbone. To combat visual distortions such as orientation, pose and size, we learn templates at multiple scales, and at test-time parse and match instances across these scales. We show that our method is competitive with the state-of-the-art, and by virtue of parsing enjoys interpretability as well.
Extreme X-Ray Reflection in the Nucleus of the Seyfert Galaxy NGC 5033

NGC 5033 is an intriguing Seyfert galaxy because its subclassification may change with time, and because optical and submillimeter observations find that the massive black hole does not sit at the dynamical center of the galaxy, pointing to a past merger. We obtained a new optical spectrum of NGC 5033 using the 200″ Hale telescope at Palomar that clearly reveals a broad Hβ line (FWHM = 5400 ± 300 km s−1). This signals a clear view of the optical broad line region and requires Seyfert-1.5 designation. Some spectra obtained in the past suggest a Seyfert-1.9 classification, potentially signaling a variable or “changing-look” geometry. Our analysis of a 2019 Chandra spectrum of the massive black hole reveals very little obscuration, also suggesting a clean view of the central engine. However, the narrow Fe Kα emission line is measured to have an equivalent width of EW =460−90+100 eV. This value is extremely high compared to typical values in unobscured active galactic nuclei . Indeed, the line is persistently strong in NGC 5033: the line equivalent width in a 2002 XMM-Newton snapshot is EW =250−40+40 eV, similar to the EW =290−100+100 eV equivalent width measured using ASCA in 1999. These results can likely be explained through a combination of an unusually high covering factor for reflection, and fluxes that are seen out of phase owing to light travel times. We examine the possibility that NGC 5033 may strengthen evidence for the X-ray Baldwin effect.
Continuous-time Analysis for Variational Inequalities: An Overview and Desiderata

Algorithms that solve zero-sum games, multi-objective agent objectives, or, more generally, variational inequality (VI) problems are notoriously unstable on general problems. Owing to the increasing need for solving such problems in machine learning, this instability has been highlighted in recent years as a significant research challenge. In this paper, we provide an overview of recent progress in the use of continuous-time perspectives in the analysis and design of methods targeting the broad VI problem class. Our presentation draws parallels between single-objective problems and multi-objective problems, highlighting the challenges of the latter. We also formulate various desiderata for algorithms that apply to general VIs and we argue that achieving these desiderata may profit from an understanding of the associated continuous-time dynamics.
Improved OOD Generalization via Conditional Invariant Regularizer

Recently, generalization on out-of-distribution (OOD) data with correlation shift has attracted great attention. The correlation shift is caused by the spurious attributes that correlate to the class label, as the correlation between them may vary in training and test data. For such a problem, we show that given the class label, the conditionally independent models of spurious attributes are OOD generalizable. Based on this, a metric Conditional Spurious Variation (CSV) which controls OOD generalization error, is proposed to measure such conditional independence. To improve the OOD generalization, we regularize the training process with the proposed CSV. Under mild assumptions, our training objective can be formulated as a nonconvex-concave mini-max problem. An algorithm with provable convergence rate is proposed to solve the problem. Extensive empirical results verify our algorithm’s eﬃcacy in improving OOD generalization.
Convolutional Bypasses Are Better Vision Transformer Adapters

The pretrain-then-finetune paradigm has been widely adopted in computer vision. But as the size of Vision Transformer (ViT) grows exponentially, the full finetuning becomes prohibitive in view of the heavier storage overhead. Motivated by parameter-efficient transfer learning (PETL) on language transformers, recent studies attempt to insert lightweight adaptation modules (e.g., adapter layers or prompt tokens) to pretrained ViT and only finetune these modules while the pretrained weights are frozen. However, these modules were originally proposed to finetune language models and did not take into account the prior knowledge specifically for visual tasks. In this paper, we propose to construct Convolutional Bypasses (Convpass) in ViT as adaptation modules, introducing only a small amount (less than 0.5% of model parameters) of trainable parameters to adapt the large ViT. Different from other PETL methods, Convpass benefits from the hard-coded inductive bias of convolutional layers and thus is more suitable for visual tasks, especially in the low-data regime. Experimental results on VTAB-1K benchmark and few-shot learning datasets show that Convpass outperforms current language-oriented adaptation modules, demonstrating the necessity to tailor vision-oriented adaptation modules for adapting vision models.
Bias Mitigation for Machine Learning Classifiers: A Comprehensive Survey

This paper provides a comprehensive survey of bias mitigation methods for achieving fairness in Machine Learning (ML) models. We collect a total of 341 publications concerning bias mitigation for ML classifiers. These methods can be distinguished based on their intervention procedure (i.e., pre-processing, in-processing, post-processing) and the technique they apply. We investigate how existing bias mitigation methods are evaluated in the literature. In particular, we consider datasets, metrics and benchmarking. Based on the gathered insights (e.g., What is the most popular fairness metric? How many datasets are used for evaluating bias mitigation methods? ), we hope to support practitioners in making informed choices when developing and evaluating new bias mitigation methods.
RobustAnalog: Fast Variation-Aware Analog Circuit Design Via Multi-task RL

Analog/mixed-signal circuit design is one of the most complex and time-consuming stages in the whole chip design process. Due to various process, voltage, and temperature (PVT) variations from chip manufacturing, analog circuits inevitably suffer from performance degradation. Although there has been plenty of work on automating analog circuit design under the nominal condition, limited research has been done on exploring robust designs under the real and unpredictable silicon variations. Automatic analog design against variations requires prohibitive computation and time costs. To address the challenge, we present RobustAnalog, a robust circuit design framework that involves the variation information in the optimization process. Specifically, circuit optimizations under different variations are considered as a set of tasks. Similarities among tasks are leveraged and competitions are alleviated to realize a sample-efficient multi-task training. Moreover, RobustAnalog prunes the task space according to the current performance in each iteration, leading to a further simulation cost reduction. In this way, RobustAnalog can rapidly produce a set of circuit parameters that satisfies diverse constraints (e.g. gain, bandwidth, noise.) across variations. We compare RobustAnalog with Bayesian optimization, Evolutionary algorithm, and Deep Deterministic Policy Gradient (DDPG) and demonstrate that RobustAnalog can significantly reduce required the optimization time by 14×-30×. Therefore, our study provides a feasible method to handle various real silicon conditions.
Octuplet Loss: Make Face Recognition Robust to Image Resolution

Image resolution, or in general, image quality, plays an essential role in the performance of today's face recognition systems. To address this problem, we propose a novel combination of the popular triplet loss to improve robustness against image resolution via fine-tuning of existing face recognition models. With octuplet loss, we leverage the relationship between high-resolution images and their synthetically down-sampled variants jointly with their identity labels. Fine-tuning several state-of-the-art approaches with our method proves that we can significantly boost performance for cross-resolution (high-to-low resolution) face verification on various datasets without meaningfully exacerbating the performance on high-to-high resolution images. Our method applied on the FaceTransformer network achieves 95.12% face verification accuracy on the challenging XQLFW dataset while reaching 99.73% on the LFW database. Moreover, the low-to-low face verification accuracy benefits from our method. We release our code11Code available on https://github.com/Martlgap/octuplet-loss to allow seamless integration of the octuplet loss into existing frameworks.
SHREC 2022 Track on Online Detection of Heterogeneous Gestures

This paper presents the outcomes of a contest organized to evaluate methods for the online recognition of heterogeneous gestures from sequences of 3D hand poses. The task is the detection of gestures belonging to a dictionary of 16 classes characterized by different pose and motion features. The dataset features continuous sequences of hand tracking data where the gestures are interleaved with non-significant motions. The data have been captured using the Hololens 2 finger tracking system in a realistic use-case of mixed reality interaction. The evaluation is based not only on the detection performances but also on the latency and the false positives, making it possible to understand the feasibility of practical interaction tools based on the algorithms proposed. The outcomes of the contest's evaluation demonstrate the necessity of further research to reduce recognition errors, while the computational cost of the algorithms proposed is sufficiently low.
Towards Grand Unification of Object Tracking

We present a unified method, termed Unicorn, that can simultaneously solve four tracking problems (SOT, MOT, VOS, MOTS) with a single network using the same model parameters. Due to the fragmented definitions of the object tracking problem itself, most existing trackers are developed to address a single or part of tasks and overspecialize on the characteristics of specific tasks. By contrast, Unicorn provides a unified solution, adopting the same input, backbone, embedding, and head across all tracking tasks. For the first time, we accomplish the great unification of the tracking network architecture and learning paradigm. Unicorn performs on-par or better than its task-specific counterparts in 8 tracking datasets, including LaSOT, TrackingNet, MOT17, BDD100K, DAVIS16-17, MOTS20, and BDD100K MOTS. We believe that Unicorn will serve as a solid step towards the general vision model. Code is available at https://github.com/MasterBin-IIAU/Unicorn.
E2-AEN: End-to-End Incremental Learning with Adaptively Expandable Network

Expandable networks have demonstrated their advantages in dealing with catastrophic forgetting problem in incremental learning. Considering that different tasks may need different structures, recent methods design dynamic structures adapted to different tasks via sophisticated skills. Their routine is to search expandable structures first and then train on the new tasks, which, however, breaks tasks into multiple training stages, leading to suboptimal or overmuch computational cost. In this paper, we propose an end-to-end trainable adaptively expandable network named E2-AEN, which dynamically generates lightweight structures for new tasks without any accuracy drop in previous tasks. Specifically, the network contains a serial of powerful feature adapters for augmenting the previously learned representations to new tasks, and avoiding task interference. These adapters are controlled via an adaptive gate-based pruning strategy which decides whether the expanded structures can be pruned, making the network structure dynamically changeable according to the complexity of the new tasks. Moreover, we introduce a novel sparsity-activation regularization to encourage the model to learn discriminative features with limited parameters. E2-AEN reduces cost and can be built upon any feed-forward architectures in an end-to-end manner. Extensive experiments on both classification (i.e., CIFAR and VDD) and detection (i.e., COCO, VOC and ICCV2021 SSLAD challenge) benchmarks demonstrate the effectiveness of the proposed method, which achieves the new remarkable results.
Parameter-Efficient Prompt Tuning Makes Generalized and Calibrated Neural Text Retrievers

Prompt tuning attempts to update few task-specific parameters in pre-trained models. It has achieved comparable performance to fine-tuning of the full parameter set on both language understanding and generation tasks. In this work, we study the problem of prompt tuning for neural text retrievers. We introduce parameter-efficient prompt tuning for text retrieval across in-domain, cross-domain, and cross-topic settings. Through an extensive analysis, we show that the strategy can mitigate the two issues -- parameter-inefficiency and weak generalizability -- faced by fine-tuning based retrieval methods. Notably, it can significantly improve the out-of-domain zero-shot generalization of the retrieval models. By updating only 0.1% of the model parameters, the prompt tuning strategy can help retrieval models achieve better generalization performance than traditional methods in which all parameters are updated. Finally, to facilitate research on retrievers' cross-topic generalizability, we curate and release an academic retrieval dataset with 18K query-results pairs in 87 topics, making it the largest topic-specific one to date.