Assessment of Axial Postural Abnormalities in Parkinsonism: Automatic Picture Analysis Software.

Background: Software-based measurements of axial postural abnormalities in Parkinson's disease (PD) are the gold standard but may be time-consuming and not always feasible in clinical practice. An automatic and reliable software to accurately obtain real-time spine flexion angles according to the recently proposed consensus-based criteria would be a useful tool for both research and clinical practice. Objective: We aimed to develop and validate a new software based on Deep Neural Networks to perform automatic measures of PD axial postural abnormalities. Methods: A total of 76 pictures from 55 PD patients with different degrees of anterior and lateral trunk flexion were used for the development and pilot validation of a new software called AutoPosturePD (APP); postural abnormalities were measured in lateral and posterior view using the freeware NeuroPostureApp (gold standard) and compared with the automatic measurement provided by the APP. Sensitivity and specificity for the diagnosis of camptocormia and Pisa syndrome were assessed. Results: We found an excellent agreement between the new APP and the gold standard for lateral trunk flexion (intraclass correlation coefficient [ICC] 0.960, IC95% 0.913-0.982, P < 0.001), anterior trunk flexion with thoracic fulcrum (ICC 0.929, IC95% 0.846-0.968, P < 0.001) and anterior trunk flexion with lumbar fulcrum (ICC 0.991, IC95% 0.962-0.997, P < 0.001). Sensitivity and specificity were 100% and 100% for detecting Pisa syndrome, 100% and 95.5% for camptocormia with thoracic fulcrum, 100% and 80.9% for camptocormia with lumbar fulcrum. Conclusions: AutoPosturePD is a valid tool for spine flexion measurement in PD, accurately supporting the diagnosis of Pisa syndrome and camptocormia.

Camera- and Viewpoint-Agnostic Evaluation of Axial Postural Abnormalities in People with Parkinson's Disease through Augmented Human Pose Estimation.

Axial postural abnormalities (aPA) are common features of Parkinson's disease (PD) and manifest in over 20% of patients during the course of the disease. aPA form a spectrum of functional trunk misalignment, ranging from a typical Parkinsonian stooped posture to progressively greater degrees of spine deviation. Current research has not yet led to a sufficient understanding of pathophysiology and management of aPA in PD, partially due to lack of agreement on validated, user-friendly, automatic tools for measuring and analysing the differences in the degree of aPA, according to patients' therapeutic conditions and tasks. In this context, human pose estimation (HPE) software based on deep learning could be a valid support as it automatically extrapolates spatial coordinates of the human skeleton keypoints from images or videos. Nevertheless, standard HPE platforms have two limitations that prevent their adoption in such a clinical practice. First, standard HPE keypoints are inconsistent with the keypoints needed to assess aPA (degrees and fulcrum). Second, aPA assessment either requires advanced RGB-D sensors or, when based on the processing of RGB images, they are most likely sensitive to the adopted camera and to the scene (e.g., sensor-subject distance, lighting, background-subject clothing contrast). This article presents a software that augments the human skeleton extrapolated by state-of-the-art HPE software from RGB pictures with exact bone points for posture evaluation through computer vision post-processing primitives. This article shows the software robustness and accuracy on the processing of 76 RGB images with different resolutions and sensor-subject distances from 55 PD patients with different degrees of anterior and lateral trunk flexion.

Preserving Data Privacy and Accuracy of Human Pose Estimation Software Based on CNN s for Remote Gait Analysis.

In the last years there have been significant improvements in the accuracy of real-time 3D skeletal data estimation software. These applications based on convolutional neural networks (CNNs) can playa key role in a variety of clinical scenarios, from gait analysis to medical diagnosis. One of the main challenges is to apply such intelligent video analytic at a distance, which requires the system to satisfy, beside accuracy, also data privacy. To satisfy privacy by default and by design, the software has to run on "edge" computing devices, by which the sensitive information (i.e., the video stream) is elaborated close to the camera while only the process results can be stored or sent over the communication network. In this paper we address such a challenge by evaluating the accuracy of the state-of-the-art software for human pose estimation when run "at the edge". We show how the most accurate platforms for pose estimation based on complex and deep neural networks can become inaccurate due to subs amp ling of the input video frames when run on the resource constrained edge devices. In contrast, we show that, starting from less accurate and "lighter" CNNs and enhancing the pose estimation software with filters and interpolation primitives, the platform achieves better real-time performance and higher accuracy with a deviation below the error tolerance of a marker-based motion capture system.

Enabling Gait Analysis in the Telemedicine Practice through Portable and Accurate 3D Human Pose Estimation.

Human pose estimation (HPE) through deep learning-based software applications is a trend topic for markerless motion analysis. Thanks to the accuracy of the state-of-the-art technology, HPE could enable gait analysis in the telemedicine practice. On the other hand, delivering such a service at a distance requires the system to satisfy multiple and different constraints like accuracy, portability, real-time, and privacy compliance at the same time. Existing solutions either guarantee accuracy and real-time (e.g., the widespread OpenPose software on well-equipped computing platforms) or portability and data privacy (e.g., light convolutional neural networks on mobile phones). We propose a portable and low-cost platform that implements real-time and accurate 3D HPE through an embedded software on a low-power off-the-shelf computing device that guarantees privacy by default and by design. We present an extended evaluation of both accuracy and performance of the proposed solution conducted with a marker-based motion capture system (i.e., Vicon) as ground truth. The results show that the platform achieves real-time performance and high-accuracy with a deviation below the error tolerance when compared to the marker-based motion capture system (e.g., less than an error of 5∘ on the estimated knee flexion difference on the entire gait cycle and correlation 0.91<ρ<0.99). We provide a proof-of-concept study, showing that such portable technology, considering the limited discrepancies with respect to the marker-based motion capture system and its working tolerance, could be used for gait analysis at a distance without leading to different clinical interpretation.

Correction to: cuRnet: an R package for graph traversing on GPU.

After publication of this supplement article [1], it was brought to our attention that reference 10 and reference 12 in the article are incorrect.

cuRnet: an R package for graph traversing on GPU.

BACKGROUND: R has become the de-facto reference analysis environment in Bioinformatics. Plenty of tools are available as packages that extend the R functionality, and many of them target the analysis of biological networks. Several algorithms for graphs, which are the most adopted mathematical representation of networks, are well-known examples of applications that require high-performance computing, and for which classic sequential implementations are becoming inappropriate. In this context, parallel approaches targeting GPU architectures are becoming pervasive to deal with the execution time constraints. Although R packages for parallel execution on GPUs are already available, none of them provides graph algorithms. RESULTS: This work presents cuRnet, a R package that provides a parallel implementation for GPUs of the breath-first search (BFS), the single-source shortest paths (SSSP), and the strongly connected components (SCC) algorithms. The package allows offloading computing intensive applications to GPU devices for massively parallel computation and to speed up the runtime up to one order of magnitude with respect to the standard sequential computations on CPU. We have tested cuRnet on a benchmark of large protein interaction networks and for the interpretation of high-throughput omics data thought network analysis. CONCLUSIONS: cuRnet is a R package to speed up graph traversal and analysis through parallel computation on GPUs. We show the efficiency of cuRnet applied both to biological network analysis, which requires basic graph algorithms, and to complex existing procedures built upon such algorithms.