MOTIVATION: High-throughput sequencing technologies [next-generation sequencing (NGS)] are increasingly used to address diverse biological questions. Despite the rich information in NGS data, particularly with the growing datasets from repositories like the Genome Sequence Archive (GSA) at NGDC, programmatic access to public sequencing data and metadata remains limited. RESULTS: We developed iSeq to enable quick and straightforward retrieval of metadata and NGS data from multiple databases via the command-line interface. iSeq supports simultaneous retrieval from GSA, SRA, ENA, and DDBJ databases. It handles over 25 different accession formats, supports Aspera downloads, parallel downloads, multi-threaded processes, FASTQ file merging, and integrity verification, simplifying data acquisition and enhancing the capacity for reanalyzing NGS data. AVAILABILITY AND IMPLEMENTATION: iSeq is freely available on Bioconda (https://anaconda.org/bioconda/iseq) and GitHub (https://github.com/BioOmics/iSeq).

Due to the proliferation of inference tasks on mobile devices, state-of-the-art neural architectures are typically designed using Neural Architecture Search (NAS) to achieve good tradeoffs between machine learning accuracy and inference latency. While measuring inference latency of a huge set of candidate architectures during NAS is not feasible, latency prediction for mobile devices is challenging, because of hardware heterogeneity, optimizations applied by machine learning frameworks, and diversity of neural architectures. Motivated by these challenges, we first quantitatively assess the characteristics of neural architectures and mobile devices that have significant effects on inference latency. Based on this assessment, we propose an operation-wise framework which addresses these challenges by developing operation-wise latency predictors and achieves high accuracy in end-to-end latency predictions, as shown by our comprehensive evaluations on multiple mobile devices using multicore CPUs and GPUs. To illustrate that our approach does not require expensive data collection, we also show that accurate predictions can be achieved on real-world neural architectures using only small amounts of profiling data.

Network Functions (NFs) now process a significant fraction of Internet traffic. Software-based NF Virtualization (NFV) promised to enable rapid development of new NFs by vendors and leverage the power and economics of commodity computing infrastructure for NF deployment. To date, no cloud NFV systems achieve NF chaining, isolation, SLO-adherence, and scaling together with existing cloud computing infrastructure and abstractions, all while achieving generality, speed, and ease of deployment. These properties are taken for granted in other cloud contexts but unavailable for NF processing.

Training jobs of deep neural networks (DNNs) can be accelerated through distributed variants of stochastic gradient descent (SGD), where multiple nodes process training examples and exchange updates. The total throughput of the nodes depends not only on their computing power, but also on their networking speeds and coordination mechanism (synchronous or asynchronous, centralized or decentralized), since communication bottlenecks and stragglers can result in sublinear scaling when additional nodes are provisioned. In this paper, we propose two classes of performance models to predict throughput of distributed SGD:fine-grained models, representing many elementary computation/communication operations and their dependencies; andcoarse-grained models, where SGD steps at each node are represented as a sequence of high-level phases without parallelism between computation and communication. Using a PyTorch implementation, real-world DNN models and different cloud environments, our experimental evaluation illustrates that, while fine-grained models are more accurate and can be easily adapted to new variants of distributed SGD, coarse-grained models can provide similarly accurate predictions when augmented with ad hoc heuristics, and their parameters can be estimated with profiling information that is easier to collect.

Modern machine learning frameworks can train neural networks using multiple nodes in parallel, each computing parameter updates with stochastic gradient descent (SGD) and sharing them asynchronously through a central parameter server. Due to communication overhead and bottlenecks, the total throughput of SGD updates in a cluster scales sublinearly, saturating as the number of nodes increases. In this paper, we present a solution to predicting training throughput from profiling traces collected from a single-node configuration. Our approach is able to model the interaction of multiple nodes and the scheduling of concurrent transmissions between the parameter server and each node. By accounting for the dependencies between received parts and pending computations, we predict overlaps between computation and communication and generate synthetic execution traces for configurations with multiple nodes. We validate our approach on TensorFlow training jobs for popular image classification neural networks, on AWS and on our in-house cluster, using nodes equipped with GPUs or only with CPUs. We also investigate the effects of data transmission policies used in TensorFlow and the accuracy of our approach when combined with optimizations of the transmission schedule.

Recent advance in Internet-of-Things (IoT) brings consumer- level smart mobile robot to our life. Indoor navigation is one of the most critical challenges for mobile robots. Existing approaches using wireless signal fingerprinting (e.g., WiFi fingerprint), computer vision techniques, require extensive war-driving of the indoor environment to collect sufficient environmental data. In this paper, we present SIGN, a lightweight, visual-tag based, indoor navigation approach that is free of indoor war-driving. The approach deploys a set of coded visual tags in the environment, and allows the robot to autonomously decide the moving direction by recognizing nearby tags and leveraging the geometry information. The proposed approach is robust to the change of the environment such as unexpected obstacles. Experiments in two indoor spaces under various scenarios show that SIGN helps the mobile robot using the off-the- shelf camera to self-navigate in indoor environment with the deployment of coded visual tags.

Businesses are interested in marketing over the mobile social network (MSN) during holiday seasons to expand their holiday sales. Understanding the “holiday syndrome” - how people behave during holidays - over the MSN is important to create a successful marketing campaign that delights customers. In this paper, we conduct an empirical measurement study of WeChat Moments (the most popular social network of the mobile messaging app WeChat in China) during the holiday season of Chinese Spring Festival (with 137 million users involved and 329 thousand applications crawled), and present a comprehensive view of the MSN's impact on the social ties among users, user interests, as well as users' migration patterns before, during, and after the holiday. Our research findings suggest that the MSN is predominantly used during holiday seasons for holiday-atmosphere building and experience sharing. It is revealed that there exist strong correlations between the timing and popular topics, and between holiday migration and regional distribution. Our results hold the promise of helping businesses to promote their marketing information dissemination to targeted groups of customers, at the right region, with appealing words, during the holiday season.