Biomedical image analysis competitions: The state of current participation practice

The number of international benchmarking competitions is steadily increasing in various fields of machine learning (ML) research and practice. So far, however, little is known about the common practice as well as bottlenecks faced by the community in tackling the research questions posed. To shed light on the status quo of algorithm development in the specific field of biomedical imaging analysis, we designed an international survey that was issued to all participants of challenges conducted in conjunction with the IEEE ISBI 2021 and MICCAI 2021 conferences (80 competitions in total). The survey covered participants' expertise and working environments, their chosen strategies, as well as algorithm characteristics. A median of 72% challenge participants took part in the survey. According to our results, knowledge exchange was the primary incentive (70%) for participation, while the reception of prize money played only a minor role (16%). While a median of 80 working hours was spent on method development, a large portion of participants stated that they did not have enough time for method development (32%). 25% perceived the infrastructure to be a bottleneck. Overall, 94% of all solutions were deep learning-based. Of these, 84% were based on standard architectures. 43% of the respondents reported that the data samples (e.g., images) were too large to be processed at once. This was most commonly addressed by patch-based training (69%), downsampling (37%), and solving 3D analysis tasks as a series of 2D tasks. K-fold cross-validation on the training set was performed by only 37% of the participants and only 50% of the participants performed ensembling based on multiple identical models (61%) or heterogeneous models (39%). 48% of the respondents applied postprocessing steps.

Learning Imbalanced Data with Vision Transformers

The real-world data tends to be heavily imbalanced and severely skew the data-driven deep neural networks, which makes Long-Tailed Recognition (LTR) a massive challenging task. Existing LTR methods seldom train Vision Transformers (ViTs) with Long-Tailed (LT) data, while the off-the-shelf pretrain weight of ViTs always leads to unfair comparisons. In this paper, we systematically investigate the ViTs' performance in LTR and propose LiVT to train ViTs from scratch only with LT data. With the observation that ViTs suffer more severe LTR problems, we conduct Masked Generative Pretraining (MGP) to learn generalized features. With ample and solid evidence, we show that MGP is more robust than supervised manners. In addition, Binary Cross Entropy (BCE) loss, which shows conspicuous performance with ViTs, encounters predicaments in LTR. We further propose the balanced BCE to ameliorate it with strong theoretical groundings. Specially, we derive the unbiased extension of Sigmoid and compensate extra logit margins to deploy it. Our Bal-BCE contributes to the quick convergence of ViTs in just a few epochs. Extensive experiments demonstrate that with MGP and Bal-BCE, LiVT successfully trains ViTs well without any additional data and outperforms comparable state-of-the-art methods significantly, e.g., our ViT-B achieves 81.0% Top-1 accuracy in iNaturalist 2018 without bells and whistles. Code is available at https://github.com/XuZhengzhuo/LiVT.

High-fidelity Facial Avatar Reconstruction from Monocular Video with Generative Priors

High-fidelity facial avatar reconstruction from a monocular video is a significant research problem in computer graphics and computer vision. Recently, Neural Radiance Field (NeRF) has shown impressive novel view rendering results and has been considered for facial avatar reconstruction. However, the complex facial dynamics and missing 3D information in monocular videos raise significant challenges for faithful facial reconstruction. In this work, we propose a new method for NeRF-based facial avatar reconstruction that utilizes 3D-aware generative prior. Different from existing works that depend on a conditional deformation field for dynamic modeling, we propose to learn a personalized generative prior, which is formulated as a local and low dimensional subspace in the latent space of 3D-GAN. We propose an efficient method to construct the personalized generative prior based on a small set of facial images of a given individual. After learning, it allows for photo-realistic rendering with novel views and the face reenactment can be realized by performing navigation in the latent space. Our proposed method is applicable for different driven signals, including RGB images, 3DMM coefficients, and audios. Compared with existing works, we obtain superior novel view synthesis results and faithfully face reenactment performance.

Learning with Noisily-labeled Class-imbalanced Data

Real-world large-scale datasets are both noisily labeled and class-imbalanced. The issues seriously hurt the generalization of trained models. It is hence significant to address the simultaneous incorrect labeling and class-imbalance, i.e., the problem of learning with noisy labels on long-tailed data. Previous works develop several methods for the problem. However, they always rely on strong assumptions that are invalid or hard to be checked in practice. In this paper, to handle the problem and address the limitations of prior works, we propose a representation calibration method RCAL. Specifically, RCAL works with the representations extracted by unsupervised contrastive learning. We assume that without incorrect labeling and class imbalance, the representations of instances in each class conform to a multivariate Gaussian distribution, which is much milder and easier to be checked. Based on the assumption, we recover underlying representation distributions from polluted ones resulting from mislabeled and class-imbalanced data. Additional data points are then sampled from the recovered distributions to help generalization. Moreover, during classifier training, representation learning takes advantage of representation robustness brought by contrastive learning, which further improves the classifier performance. Experiments on multiple benchmarks justify our claims and confirm the superiority of the proposed method.

Uni-Perceiver v2: A Generalist Model for Large-Scale Vision and Vision-Language Tasks

Despite the remarkable success of foundation models, their task-specific fine-tuning paradigm makes them inconsistent with the goal of general perception modeling. The key to eliminating this inconsistency is to use generalist models for general task modeling. However, existing attempts at generalist models are inadequate in both versatility and performance. In this paper, we propose Uni-Perceiver v2, which is the first generalist model capable of handling major large-scale vision and vision-language tasks with competitive performance. Specifically, images are encoded as general region proposals, while texts are encoded via a Transformer-based language model. The encoded representations are transformed by a task-agnostic decoder. Different tasks are formulated as a unified maximum likelihood estimation problem. We further propose an improved optimizer to ensure stable multi-task learning with an unmixed sampling strategy, which is helpful for tasks requiring large batch-size training. After being jointly trained on various tasks, Uni-Perceiver v2 is capable of directly handling downstream tasks without any task-specific adaptation. Results show that Uni-Perceiver v2 outperforms all existing generalist models in both versatility and performance. Meanwhile, compared with the commonly-recognized strong baselines that require tasks-specific fine-tuning, Uni-Perceiver v2 achieves competitive performance on a broad range of vision and vision-language tasks.

One Model to Edit Them All: Free-Form Text-Driven Image Manipulation with Semantic Modulations

Free-form text prompts allow users to describe their intentions during image manipulation conveniently. Based on the visual latent space of StyleGAN[21] and text embedding space of CLIP[34], studies focus on how to map these two latent spaces for text-driven attribute manipulations. Currently, the latent mapping between these two spaces is empirically designed and confines that each manipulation model can only handle one fixed text prompt. In this paper, we propose a method named Free-Form CLIP (FFCLIP), aiming to establish an automatic latent mapping so that one manipulation model handles free-form text prompts. Our FFCLIP has a cross-modality semantic modulation module containing semantic alignment and injection. The semantic alignment performs the automatic latent mapping via linear transformations with a cross attention mechanism. After alignment, we inject semantics from text prompt embeddings to the StyleGAN latent space. For one type of image (e.g., `human portrait'), one FFCLIP model can be learned to handle free-form text prompts. Meanwhile, we observe that although each training text prompt only contains a single semantic meaning, FFCLIP can leverage text prompts with multiple semantic meanings for image manipulation. In the experiments, we evaluate FFCLIP on three types of images (i.e., `human portraits', `cars', and `churches'). Both visual and numerical results show that FFCLIP effectively produces semantically accurate and visually realistic images. Project page: https://github.com/KumapowerLIU/FFCLIP.

Darwinian Model Upgrades: Model Evolving with Selective Compatibility

The traditional model upgrading paradigm for retrieval requires recomputing all gallery embeddings before deploying the new model (dubbed as "backfilling"), which is quite expensive and time-consuming considering billions of instances in industrial applications. BCT presents the first step towards backward-compatible model upgrades to get rid of backfilling. It is workable but leaves the new model in a dilemma between new feature discriminativeness and new-to-old compatibility due to the undifferentiated compatibility constraints. In this work, we propose Darwinian Model Upgrades (DMU), which disentangle the inheritance and variation in the model evolving with selective backward compatibility and forward adaptation, respectively. The old-to-new heritable knowledge is measured by old feature discriminativeness, and the gallery features, especially those of poor quality, are evolved in a lightweight manner to become more adaptive in the new latent space. We demonstrate the superiority of DMU through comprehensive experiments on large-scale landmark retrieval and face recognition benchmarks. DMU effectively alleviates the new-to-new degradation and improves new-to-old compatibility, rendering a more proper model upgrading paradigm in large-scale retrieval systems.

Tackling Instance-Dependent Label Noise with Dynamic Distribution Calibration

Instance-dependent label noise is realistic but rather challenging, where the label-corruption process depends on instances directly. It causes a severe distribution shift between the distributions of training and test data, which impairs the generalization of trained models. Prior works put great effort into tackling the issue. Unfortunately, these works always highly rely on strong assumptions or remain heuristic without theoretical guarantees. In this paper, to address the distribution shift in learning with instance-dependent label noise, a dynamic distribution-calibration strategy is adopted. Specifically, we hypothesize that, before training data are corrupted by label noise, each class conforms to a multivariate Gaussian distribution at the feature level. Label noise produces outliers to shift the Gaussian distribution. During training, to calibrate the shifted distribution, we propose two methods based on the mean and covariance of multivariate Gaussian distribution respectively. The mean-based method works in a recursive dimension-reduction manner for robust mean estimation, which is theoretically guaranteed to train a high-quality model against label noise. The covariance-based method works in a distribution disturbance manner, which is experimentally verified to improve the model robustness. We demonstrate the utility and effectiveness of our methods on datasets with synthetic label noise and real-world unknown noise.

Super-Resolution by Predicting Offsets: An Ultra-Efficient Super-Resolution Network for Rasterized Images

Rendering high-resolution (HR) graphics brings substantial computational costs. Efficient graphics super-resolution (SR) methods may achieve HR rendering with small computing resources and have attracted extensive research interests in industry and research communities. We present a new method for real-time SR for computer graphics, namely Super-Resolution by Predicting Offsets (SRPO). Our algorithm divides the image into two parts for processing, i.e., sharp edges and flatter areas. For edges, different from the previous SR methods that take the anti-aliased images as inputs, our proposed SRPO takes advantage of the characteristics of rasterized images to conduct SR on the rasterized images. To complement the residual between HR and low-resolution (LR) rasterized images, we train an ultra-efficient network to predict the offset maps to move the appropriate surrounding pixels to the new positions. For flat areas, we found simple interpolation methods can already generate reasonable output. We finally use a guided fusion operation to integrate the sharp edges generated by the network and flat areas by the interpolation method to get the final SR image. The proposed network only contains 8,434 parameters and can be accelerated by network quantization. Extensive experiments show that the proposed SRPO can achieve superior visual effects at a smaller computational cost than the existing state-of-the-art methods.

DeViT: Deformed Vision Transformers in Video Inpainting

This paper proposes a novel video inpainting method. We make three main contributions: First, we extended previous Transformers with patch alignment by introducing Deformed Patch-based Homography (DePtH), which improves patch-level feature alignments without additional supervision and benefits challenging scenes with various deformation. Second, we introduce Mask Pruning-based Patch Attention (MPPA) to improve patch-wised feature matching by pruning out less essential features and using saliency map. MPPA enhances matching accuracy between warped tokens with invalid pixels. Third, we introduce a Spatial-Temporal weighting Adaptor (STA) module to obtain accurate attention to spatial-temporal tokens under the guidance of the Deformation Factor learned from DePtH, especially for videos with agile motions. Experimental results demonstrate that our method outperforms recent methods qualitatively and quantitatively and achieves a new state-of-the-art.