MOTIVATION: The BioArchLinux project was initiated to address challenges in bioinformatics software reproducibility and freshness. Relying on Arch Linux's user-driven ecosystem, we aim to create a comprehensive and continuously updated repository for life sciences research. RESULTS: BioArchLinux provides a PKGBUILD-based system for seamless software packaging and maintenance, enabling users to access the latest bioinformatics tools across multiple programming languages. The repository includes Docker images, Windows Subsystem for Linux (WSL) support, and Junest for nonroot environments, enhancing accessibility across platforms. Although being developed and maintained by a small core team, BioArchLinux is a fast-growing bioinformatics repository that offers a participatory and community-driven environment. AVAILABILITY AND IMPLEMENTATION: The repository, documentation, and tools are freely available at https://bioarchlinux.org and https://github.com/BioArchLinux. Users and developers are encouraged to contribute and expand this open-source initiative.

Abstract Emotion recognition in user‐generated videos plays an essential role in affective computing. In general, visual information directly affects human emotions, so the visual modality is significant for emotion recognition. Most classic approaches mainly focus on local temporal information of videos, which potentially restricts their capacity to encode the correlation of long‐range context. To address this issue, a novel network is proposed to recognize emotions in videos. To be specific, a spatio‐temporal correlation‐aware block is designed to depict the long‐range correlations between input tokens, where the convolutional layers are used to learn the local correlations and the inter‐image cross‐attention is designed to learn the long‐range and spatio‐temporal correlations between input tokens. To generate diverse and challenging samples, a dual‐augmentation fusion layer is devised, which fuses each frame with its corresponding frame in the temporal domain. To produce rich video clips, a long‐range sampling layer is designed, which generates clips in a wide range of spatial and temporal domains. Extensive experiments are conducted on two challenging video emotion datasets, namely VideoEmotion‐8 and Ekman‐6. The experimental results demonstrate that the proposed method obtains better performance than baseline methods. Moreover, the proposed method achieves state‐of‐the‐art results on the two datasets. The source code of the proposed network is available at: https://github.com/JinChow/LRCANet .

With the wide and deep adoption of deep learning models in real applications, there is an increasing need to model and learn the representations of the neural networks themselves. These models can be used to estimate attributes of different neural network architectures such as the accuracy and latency, without running the actual training or inference tasks. In this paper, we propose a neural architecture representation model that can be used to estimate these attributes holistically. Specifically, we first propose a simple and effective tokenizer to encode both the operation and topology information of a neural network into a single sequence. Then, we design a multi-stage fusion transformer to build a compact vector representation from the converted sequence. For efficient model training, we further propose an information flow consistency augmentation and correspondingly design an architecture consistency loss, which brings more benefits with less augmentation samples compared with previous random augmentation strategies. Experiment results on NAS-Bench-101, NAS-Bench-201, DARTS search space and NNLQP show that our proposed framework can be used to predict the aforementioned latency and accuracy attributes of both cell architectures and whole deep neural networks, and achieves promising performance. Code is available at https://github.com/yuny220/NAR-Former.

As more deep learning models are being applied in real-world applications, there is a growing need for modeling and learning the representations of neural networks themselves. An effective representation can be used to predict target attributes of networks without the need for actual training and deployment procedures, facilitating efficient network design and deployment. Recently, inspired by the success of Transformer, some Transformer-based representation learning frameworks have been proposed and achieved promising performance in handling cell-structured models. However, graph neural network (GNN) based approaches still dominate the field of learning representation for the entire network. In this paper, we revisit the Transformer and compare it with GNN to analyze their different architectural characteristics. We then propose a modified Transformer-based universal neural network representation learning model NAR-Former V2. It can learn efficient representations from both cell-structured networks and entire networks. Specifically, we first take the network as a graph and design a straightforward tokenizer to encode the network into a sequence. Then, we incorporate the inductive representation learning capability of GNN into Transformer, enabling Transformer to generalize better when encountering unseen architecture. Additionally, we introduce a series of simple yet effective modifications to enhance the ability of the Transformer in learning representation from graph structures. In encoding entire networks and then predicting the latency, our proposed method surpasses the GNN-based method NNLP by a significant margin on the NNLQP dataset. Furthermore, regarding accuracy prediction on the cell-structured NASBench101 and NASBench201 datasets, our method achieves highly comparable performance to other state-of-the-art methods. The code is available at https://github.com/yuny220/NAR-Former-V2.

Affective video content analysis is an important research topic in video content analysis and has extensive applications. Intuitively, multimodal features can depict elicited emotions, and the accumulation of temporal inputs influences the viewer's emotion. Although a number of research works have been proposed for this task, the adaptive weights of modalities and the correlation of temporal inputs are still not well studied. To address these issues, a novel framework is designed to learn the weights of modalities and temporal inputs from video data. Specifically, three network layers are designed, including statistical-data layer to improve the robustness of data, temporal-adaptive-fusion layer to fuse temporal inputs, and multimodal-adaptive-fusion layer to combine multiple modalities. In particular, the feature vectors of three input modalities are respectively extracted from three pre-trained convolutional neural networks and then fed to three statistical-data layers. Then, the output vectors of these three statistical-data layers are separately connected to three recurrent layers, and the corresponding outputs are fed to a fully-connected layer which shares parameters across modalities and temporal inputs. Finally, the outputs of the fully-connected layer are fused by the temporal-adaptive-fusion layer and then combined by the multimodal-adaptive-fusion layer. To discover the correlation of both multiple modalities and temporal inputs, adaptive weights of modalities and temporal inputs are introduced into loss functions for model training, and these weights are learned by an optimization algorithm. Extensive experiments are conducted on two challenging datasets, which demonstrate that the proposed method achieves better performances than baseline and other state-of-the-art methods.

The spatial independence and temporal continuity of video data as a whole are not fully investigated for video action detection. To tackle this issue, a deep network architecture is proposed, named Pseudo-3D Convolutional Tube Network (P3D-CTN). In particular, the proposed P3D-CTN integrates the frame-based two-dimensional convolutional module with the P3D convolutional module to balance the spatial and temporal information, and generates deeper features about human actions. Evaluations on two benchmark datasets (i.e., UCF-Sports and J-HMDB) demonstrate that the proposed P3D-CTN has superior performances in the task of action label prediction and yields state-of-the-art results for spatio-temporal action detection.

Human action recognition from realistic videos plays a key role in multimedia event detection and understanding. In this paper, a novel Trajectory Based Covariance (TBC) descriptor is proposed, which is formulated along the dense trajectories. To map the descriptor matrix to vector space and trim out the redundancy of data, the TBC descriptor matrix is projected to Euclidean space by the Logarithm Principal Components Analysis (LogPCA). Our method is tested on the challenging Hollywood2 and TV Human Interaction datasets. Experimental results show that the proposed TBC descriptor outperforms three baseline descriptors (i.e., histogram of oriented gradient, histogram of optical flow and motion boundary histogram), and our method achieves better recognition performances than a number of state-of-the-art approaches.

It plays an important role to recognize human actions from realistic videos in multimedia event detection and understanding. To this aim, a novel human tracking approach is proposed in this paper. Firstly, salient key points trajectories are generated to track human actions at multiple spatial scales. Then, camera motion elimination is utilized to further improve the robustness of motion trajectories. To depict human motions accurately and efficiently, the Histogram of Oriented Gradient (HOG), Histogram of Optical Flow (HOF) and Motion Boundary Histogram (MBH) are employed with the Fisher vector model being utilized to aggregate these three features. Extensive experimental results on four challenging human action video datasets demonstrate that the proposed approach is able to achieve better recognition performances in a more computationally efficient manner as compared with a number of state-of-the-art approaches.

We present an interactive gesture recognition-based, immersive augmented reality system visualizing computational fluid dynamics (CFD) datasets of indoor environments. CFD simulation is used to predict the indoor environments and assess their response to specific internal and external conditions. To enable efficient visualization of CFD datasets in actual-space, an augmented reality system was integrated with a CFD simulation engine. To facilitate efficient data manipulation of the simulated post-processed CFD data and to increase the user-control of the immersive environment, a new intuitive method of human-computer interaction (HCI) has been incorporated. A gesture recognition system was integrated with the augmented reality-CFD structure to transform hand-postural data into a general description of hand-shape, through forward kinematics and computation of hand segment positions and their joint angles. This enabled real-time interactions between users and simulated CFD results in actual-space.