new

Get trending papers in your email inbox!

Subscribe

Daily Papers

byAK and the research community

Aug 8

NuClick: A Deep Learning Framework for Interactive Segmentation of Microscopy Images

Object segmentation is an important step in the workflow of computational pathology. Deep learning based models generally require large amount of labeled data for precise and reliable prediction. However, collecting labeled data is expensive because it often requires expert knowledge, particularly in medical imaging domain where labels are the result of a time-consuming analysis made by one or more human experts. As nuclei, cells and glands are fundamental objects for downstream analysis in computational pathology/cytology, in this paper we propose a simple CNN-based approach to speed up collecting annotations for these objects which requires minimum interaction from the annotator. We show that for nuclei and cells in histology and cytology images, one click inside each object is enough for NuClick to yield a precise annotation. For multicellular structures such as glands, we propose a novel approach to provide the NuClick with a squiggle as a guiding signal, enabling it to segment the glandular boundaries. These supervisory signals are fed to the network as auxiliary inputs along with RGB channels. With detailed experiments, we show that NuClick is adaptable to the object scale, robust against variations in the user input, adaptable to new domains, and delivers reliable annotations. An instance segmentation model trained on masks generated by NuClick achieved the first rank in LYON19 challenge. As exemplar outputs of our framework, we are releasing two datasets: 1) a dataset of lymphocyte annotations within IHC images, and 2) a dataset of segmented WBCs in blood smear images.

ChAda-ViT : Channel Adaptive Attention for Joint Representation Learning of Heterogeneous Microscopy Images

Unlike color photography images, which are consistently encoded into RGB channels, biological images encompass various modalities, where the type of microscopy and the meaning of each channel varies with each experiment. Importantly, the number of channels can range from one to a dozen and their correlation is often comparatively much lower than RGB, as each of them brings specific information content. This aspect is largely overlooked by methods designed out of the bioimage field, and current solutions mostly focus on intra-channel spatial attention, often ignoring the relationship between channels, yet crucial in most biological applications. Importantly, the variable channel type and count prevent the projection of several experiments to a unified representation for large scale pre-training. In this study, we propose ChAda-ViT, a novel Channel Adaptive Vision Transformer architecture employing an Inter-Channel Attention mechanism on images with an arbitrary number, order and type of channels. We also introduce IDRCell100k, a bioimage dataset with a rich set of 79 experiments covering 7 microscope modalities, with a multitude of channel types, and channel counts varying from 1 to 10 per experiment. Our proposed architecture, trained in a self-supervised manner, outperforms existing approaches in several biologically relevant downstream tasks. Additionally, it can be used to bridge the gap for the first time between assays with different microscopes, channel numbers or types by embedding various image and experimental modalities into a unified biological image representation. The latter should facilitate interdisciplinary studies and pave the way for better adoption of deep learning in biological image-based analyses. Code and Data to be released soon.

FusionVision: A comprehensive approach of 3D object reconstruction and segmentation from RGB-D cameras using YOLO and fast segment anything

In the realm of computer vision, the integration of advanced techniques into the processing of RGB-D camera inputs poses a significant challenge, given the inherent complexities arising from diverse environmental conditions and varying object appearances. Therefore, this paper introduces FusionVision, an exhaustive pipeline adapted for the robust 3D segmentation of objects in RGB-D imagery. Traditional computer vision systems face limitations in simultaneously capturing precise object boundaries and achieving high-precision object detection on depth map as they are mainly proposed for RGB cameras. To address this challenge, FusionVision adopts an integrated approach by merging state-of-the-art object detection techniques, with advanced instance segmentation methods. The integration of these components enables a holistic (unified analysis of information obtained from both color RGB and depth D channels) interpretation of RGB-D data, facilitating the extraction of comprehensive and accurate object information. The proposed FusionVision pipeline employs YOLO for identifying objects within the RGB image domain. Subsequently, FastSAM, an innovative semantic segmentation model, is applied to delineate object boundaries, yielding refined segmentation masks. The synergy between these components and their integration into 3D scene understanding ensures a cohesive fusion of object detection and segmentation, enhancing overall precision in 3D object segmentation. The code and pre-trained models are publicly available at https://github.com/safouaneelg/FusionVision/.

Adversarial Perturbations Prevail in the Y-Channel of the YCbCr Color Space

Deep learning offers state of the art solutions for image recognition. However, deep models are vulnerable to adversarial perturbations in images that are subtle but significantly change the model's prediction. In a white-box attack, these perturbations are generally learned for deep models that operate on RGB images and, hence, the perturbations are equally distributed in the RGB color space. In this paper, we show that the adversarial perturbations prevail in the Y-channel of the YCbCr space. Our finding is motivated from the fact that the human vision and deep models are more responsive to shape and texture rather than color. Based on our finding, we propose a defense against adversarial images. Our defence, coined ResUpNet, removes perturbations only from the Y-channel by exploiting ResNet features in an upsampling framework without the need for a bottleneck. At the final stage, the untouched CbCr-channels are combined with the refined Y-channel to restore the clean image. Note that ResUpNet is model agnostic as it does not modify the DNN structure. ResUpNet is trained end-to-end in Pytorch and the results are compared to existing defence techniques in the input transformation category. Our results show that our approach achieves the best balance between defence against adversarial attacks such as FGSM, PGD and DDN and maintaining the original accuracies of VGG-16, ResNet50 and DenseNet121 on clean images. We perform another experiment to show that learning adversarial perturbations only for the Y-channel results in higher fooling rates for the same perturbation magnitude.

Neural Video Compression with Feature Modulation

The emerging conditional coding-based neural video codec (NVC) shows superiority over commonly-used residual coding-based codec and the latest NVC already claims to outperform the best traditional codec. However, there still exist critical problems blocking the practicality of NVC. In this paper, we propose a powerful conditional coding-based NVC that solves two critical problems via feature modulation. The first is how to support a wide quality range in a single model. Previous NVC with this capability only supports about 3.8 dB PSNR range on average. To tackle this limitation, we modulate the latent feature of the current frame via the learnable quantization scaler. During the training, we specially design the uniform quantization parameter sampling mechanism to improve the harmonization of encoding and quantization. This results in a better learning of the quantization scaler and helps our NVC support about 11.4 dB PSNR range. The second is how to make NVC still work under a long prediction chain. We expose that the previous SOTA NVC has an obvious quality degradation problem when using a large intra-period setting. To this end, we propose modulating the temporal feature with a periodically refreshing mechanism to boost the quality. %Besides solving the above two problems, we also design a single model that can support both RGB and YUV colorspaces. Notably, under single intra-frame setting, our codec can achieve 29.7\% bitrate saving over previous SOTA NVC with 16\% MACs reduction. Our codec serves as a notable landmark in the journey of NVC evolution. The codes are at https://github.com/microsoft/DCVC.

Experimental Design for Multi-Channel Imaging via Task-Driven Feature Selection

This paper presents a data-driven, task-specific paradigm for experimental design, to shorten acquisition time, reduce costs, and accelerate the deployment of imaging devices. Current approaches in experimental design focus on model-parameter estimation and require specification of a particular model, whereas in imaging, other tasks may drive the design. Furthermore, such approaches often lead to intractable optimization problems in real-world imaging applications. Here we present a new paradigm for experimental design that simultaneously optimizes the design (set of image channels) and trains a machine-learning model to execute a user-specified image-analysis task. The approach obtains data densely-sampled over the measurement space (many image channels) for a small number of acquisitions, then identifies a subset of channels of prespecified size that best supports the task. We propose a method: TADRED for TAsk-DRiven Experimental Design in imaging, to identify the most informative channel-subset whilst simultaneously training a network to execute the task given the subset. Experiments demonstrate the potential of TADRED in diverse imaging applications: several clinically-relevant tasks in magnetic resonance imaging; and remote sensing and physiological applications of hyperspectral imaging. Results show substantial improvement over classical experimental design, two recent application-specific methods within the new paradigm, and state-of-the-art approaches in supervised feature selection. We anticipate further applications of our approach. Code is available: https://github.com/sbb-gh/experimental-design-multichannel

Color Matching Using Hypernetwork-Based Kolmogorov-Arnold Networks

We present cmKAN, a versatile framework for color matching. Given an input image with colors from a source color distribution, our method effectively and accurately maps these colors to match a target color distribution in both supervised and unsupervised settings. Our framework leverages the spline capabilities of Kolmogorov-Arnold Networks (KANs) to model the color matching between source and target distributions. Specifically, we developed a hypernetwork that generates spatially varying weight maps to control the nonlinear splines of a KAN, enabling accurate color matching. As part of this work, we introduce a first large-scale dataset of paired images captured by two distinct cameras and evaluate the efficacy of our and existing methods in matching colors. We evaluated our approach across various color-matching tasks, including: (1) raw-to-raw mapping, where the source color distribution is in one camera's raw color space and the target in another camera's raw space; (2) raw-to-sRGB mapping, where the source color distribution is in a camera's raw space and the target is in the display sRGB space, emulating the color rendering of a camera ISP; and (3) sRGB-to-sRGB mapping, where the goal is to transfer colors from a source sRGB space (e.g., produced by a source camera ISP) to a target sRGB space (e.g., from a different camera ISP). The results show that our method outperforms existing approaches by 37.3% on average for supervised and unsupervised cases while remaining lightweight compared to other methods. The codes, dataset, and pre-trained models are available at: https://github.com/gosha20777/cmKAN

ECA-Net: Efficient Channel Attention for Deep Convolutional Neural Networks

Recently, channel attention mechanism has demonstrated to offer great potential in improving the performance of deep convolutional neural networks (CNNs). However, most existing methods dedicate to developing more sophisticated attention modules for achieving better performance, which inevitably increase model complexity. To overcome the paradox of performance and complexity trade-off, this paper proposes an Efficient Channel Attention (ECA) module, which only involves a handful of parameters while bringing clear performance gain. By dissecting the channel attention module in SENet, we empirically show avoiding dimensionality reduction is important for learning channel attention, and appropriate cross-channel interaction can preserve performance while significantly decreasing model complexity. Therefore, we propose a local cross-channel interaction strategy without dimensionality reduction, which can be efficiently implemented via 1D convolution. Furthermore, we develop a method to adaptively select kernel size of 1D convolution, determining coverage of local cross-channel interaction. The proposed ECA module is efficient yet effective, e.g., the parameters and computations of our modules against backbone of ResNet50 are 80 vs. 24.37M and 4.7e-4 GFLOPs vs. 3.86 GFLOPs, respectively, and the performance boost is more than 2% in terms of Top-1 accuracy. We extensively evaluate our ECA module on image classification, object detection and instance segmentation with backbones of ResNets and MobileNetV2. The experimental results show our module is more efficient while performing favorably against its counterparts.

ColorBench: Can VLMs See and Understand the Colorful World? A Comprehensive Benchmark for Color Perception, Reasoning, and Robustness

Color plays an important role in human perception and usually provides critical clues in visual reasoning. However, it is unclear whether and how vision-language models (VLMs) can perceive, understand, and leverage color as humans. This paper introduces ColorBench, an innovative benchmark meticulously crafted to assess the capabilities of VLMs in color understanding, including color perception, reasoning, and robustness. By curating a suite of diverse test scenarios, with grounding in real applications, ColorBench evaluates how these models perceive colors, infer meanings from color-based cues, and maintain consistent performance under varying color transformations. Through an extensive evaluation of 32 VLMs with varying language models and vision encoders, our paper reveals some undiscovered findings: (i) The scaling law (larger models are better) still holds on ColorBench, while the language model plays a more important role than the vision encoder. (ii) However, the performance gaps across models are relatively small, indicating that color understanding has been largely neglected by existing VLMs. (iii) CoT reasoning improves color understanding accuracies and robustness, though they are vision-centric tasks. (iv) Color clues are indeed leveraged by VLMs on ColorBench but they can also mislead models in some tasks. These findings highlight the critical limitations of current VLMs and underscore the need to enhance color comprehension. Our ColorBenchcan serve as a foundational tool for advancing the study of human-level color understanding of multimodal AI.

Semantics-Guided Diffusion for Deep Joint Source-Channel Coding in Wireless Image Transmission

Joint source-channel coding (JSCC) offers a promising avenue for enhancing transmission efficiency by jointly incorporating source and channel statistics into the system design. A key advancement in this area is the deep joint source and channel coding (DeepJSCC) technique that designs a direct mapping of input signals to channel symbols parameterized by a neural network, which can be trained for arbitrary channel models and semantic quality metrics. This paper advances the DeepJSCC framework toward a semantics-aligned, high-fidelity transmission approach, called semantics-guided diffusion DeepJSCC (SGD-JSCC). Existing schemes that integrate diffusion models (DMs) with JSCC face challenges in transforming random generation into accurate reconstruction and adapting to varying channel conditions. SGD-JSCC incorporates two key innovations: (1) utilizing some inherent information that contributes to the semantics of an image, such as text description or edge map, to guide the diffusion denoising process; and (2) enabling seamless adaptability to varying channel conditions with the help of a semantics-guided DM for channel denoising. The DM is guided by diverse semantic information and integrates seamlessly with DeepJSCC. In a slow fading channel, SGD-JSCC dynamically adapts to the instantaneous signal-to-noise ratio (SNR) directly estimated from the channel output, thereby eliminating the need for additional pilot transmissions for channel estimation. In a fast fading channel, we introduce a training-free denoising strategy, allowing SGD-JSCC to effectively adjust to fluctuations in channel gains. Numerical results demonstrate that, guided by semantic information and leveraging the powerful DM, our method outperforms existing DeepJSCC schemes, delivering satisfactory reconstruction performance even at extremely poor channel conditions.