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BioCV Motion Capture Dataset
No full textThe BioCV dataset consists of synchronised multi-camera video, marker tracks from optical motion capture, and forceplate data for 15 participants performing controlled and repeated motions. It also includes photogrammetry scans (images and point cloud reconstructions) for each participant. The dataset was created for the purposes of evaluating the performance of computer vision based markerless motion capture systems with respect to marker based systems.The BioCV dataset provides observations of 15 human participants as they perform a set of movements typical of biomechanical assessment. The observations come from 3 modalities:
- 200 fps HD colour video from a 9 camera machine vision system
- marker tracks from a 200 Hz optical motion capture system synchronised to
the video system
- 1000 Hz analogue signals from forceplates embedded in the floor.
Each of the 15 participants was also scanned using a 64 camera photogrammetry system. The scan photos and a rudimentary point cloud are also provided.
A 200 fps 9-camera (JAI SP-5000C-CXP2 / Silicon Software MicroEnable 5) machine vision system and 15 camera optical motion capture system (Qualisys Oqus) were set up in a circle around a set of in-floor force-plates (Kistler 9287CA). The machine vision system generated a sychronisation signal which was used to control image capture of both the machine vision and motion capture cameras. The Forceplates were recorded in sync with the motion capture system, and a further auxilliary set of timing lights were used to ensure frame synchronisation of the systems. The machine vision system was calibrated using observations of a calibration board in conjunction with standard bundle adjustment, while the motion capture system was calibrated as per manfacturer specifications. The machine vision calibration was then spatially aligned to the motion capture system using observations of a single marker in motion through the scene.
The 15 participants are healthy volunteers and each provided informed consent to have their data shared in this dataset. The 8 females and 7 males peformed a range of motion trials consistent with common biomechanical assessments, including counter-movement jumps, walking, and running. Each movement was repeated numerous times with the participant wearing a full set of 42 motion capture markers while observed by the 3 sensor systems. A further smaller set of trials was conducted without wearing the markers, so that these trials could be used by practitioners who wish to make use of the marker-free video data to augment the training of any relevant algorithms.
Motion capture data is provided as marker tracks in the .c3d file format which can be read using (for example) the EZC3D software library (C++, Python and other interfaces). Two versions of the .c3d file are provided. The first is the "raw" data as exported by Qualisys Track Manager, and the second "markers" file has been processed using Visual 3D. For processing, the raw tracks were low-pass filtered (Butterworth 4th order, cut-off 12 Hz) and a 6DoF model was computed, with joint centres computed as the point 50\% between the medial and lateral marker for all joints except the hip joint centre which was computed using the regression equations reported by (Bell 1989).
Each participant was also scanned by a 64 camera photogrammetry system. The resulting images are included with the dataset. The images have been processed using the AgiSoft Photoscan software to automatically calibrate the cameras and reconstruct 3D point clouds of the surface of the participant. This should allow the fitting of volumetric models, which may be relevant for markerless motion capture techniques that can benefit from person specific body models.Machine Vision System:
- 9 JAI SP-5000C-CXP2
- 3 Silicon Software MircoEnable 5 frame grabbers
- Silicon Software OptoTrigger 5 I/O board for externalising sync and trigger
signals
- custom recording software
- custom calibration software
- set to record a 1920x1280 resolution and 200 fps.
Motion capture system:
- 15 camera Qualisys Oqus system
- 4 Kistler 9287CA force plates
- Qualisys Track Manager v2019.3
- Visual 3D (v6, C-Motion Inc)
Photogrammetry system:
- 50 Canon EOS 1300D cameras
- 14 Canon EOS 2000D cameras
- triggering system
- Agisoft Photoscan softwareThe data have been divided into 15 .tar archives, with one archive for each participant. Within each archive are:
- camera calibration files for the machine vision system for each participant
- directories for each participant's movement trials, each of which contains:
- 9 video files, one for each camera (h265 encoded mpeg4 files using yuv
444p)
- 1 "raw.c3d" unprocessed motion capture file
- 1 "markers.c3d" Visual 3D processed motion capture file
- 1 "led.c3d" file, observations of the auxilliary sychronisation light
system.
The video files were created using the FFMPeg library and can be viewed either using FFMpeg's tools (e.g. ffplay) or various other video players, such as VLC. (The YUV444p colour format may make some video players not accept the files). Computer Vision practitioners should have no difficulties using the videos through OpenCV using the FFMpeg backend either with Python or C++ in Linux and Windows.
Calibration files have a simple text file format providing image dimensions, 3x3 intrinsic matrix K, 4x4 extrinsic transformation L (which transforms a point from world to camera coordinates) and distortion parameters k0 -> k4 compatible with OpenCV distortion models. The format of the file is as follows:
```
K00 K01 K02 K10 K11 K12 K20 K21 K22
L00 L01 L02 L03 L10 L11 L12 L13 L20 L21 L22 L23 L30 L31 L32 L33
k0 k1 k2 k3 k4 ``
Dataset for "Exercise prevents seasonal decline in vitamin D metabolites in people with overweight and obesity"
No full textData from 41 participants who completed a randomised control trial of either 10-weeks of exercise whilst remaining weight stable, or 10-weeks lifestyle maintenance, over the winter. Data are participant sex, age, height, body mass, body mass index, percentage body fat, fat mass index, total fat mass, fat free mass, tibial bone mineral density, calf muscle cross-sectional area and density, physical activity level, Fitzpatrick skin phototype score, serum total 25(OH)D, 25OHD3, 25OHD2, 1,25(OH)2D3, 24,25(OH)2D3, 3-Epi-25OHD3, Vitamin D3, d3-25OHD3 half-life, adipose 25OHD3 and D3, RNA gene expression for genes related to vitamin D metabolism that are expressed in adipose, serum vitamin D binding protein, plasma intact parathyroid hormone, plasma albumin, serum total calcium, aspartate transferase, alanine transaminase, serum interleukin-6, serum C-reactive protein, serum insulin, serum glucose, serum leptin, serum triglyceride, serum non-esterified fatty acids, serum low-density lipoprotein cholesterol, serum high-density lipoprotein cholesterol, maximal rate of oxygen uptake, maximal rate of fat oxidation, daily vitamin D intake, physical activity level, total daily energy expenditure, daily sedentary time and daily moderate to vigorous activity time. All measures were taken at baseline and post-intervention.Please refer to the methodology within the protocol, accessible via the registry link below
Numerical data and higher resolution images for Abdulkareem et al (2024), "Thermal stabilisation of lysozyme through ensilication", Molecules
No full textNumerical data and higher resolution images for the paper, "Thermal stabilisation of lysozyme through ensilication", which tests the effect of three commonly used biological buffers (50 mM Tris-HCl (pH 7.2), 50 mM sodium phosphate (pH 7.2), and phosphate buffer saline (PBS)) on the ensilication, storage, and desilication of the enzyme lysozyme
Dataset for Thermal Comfort Survey in Djibouti
No full textThe data was collected through a thermal comfort survey in Djibouti in Markazi refugee camp. The data includes key indoor environmental parameters such as temperature (wet bulb temp, air temp, glob temp and operative temp), air velocity and relative humidity. Moreover, the dataset contains information about the metabolic rate and Clo value, TSV and TPV of the survey participants.The data was collected via a thermal comfort survey, including spot measurements of environmental parameters, the surveys were conducted directly in the Arabic language. The families were selected randomly. Given the range of backgrounds, intra-household dynamics, education and literacy levels, all surveys were administered through an interview. A repeated transverse survey method was used to collect the data. The thermal comfort scales were the standard 7-point ASHRAE thermal sensation scale and the 5-point thermal preference scal
Pore water pressure measurements from a trial cutting and trial embankment at Boddington
No full textThis dataset includes pore water pressure measurements from a trial cutting and trial embankment at Boddington, central England. The measurement period includes before, during and after construction of the trial cutting and trial embankment.Vibrating wire piezometers and GeO flushable piezometers were installed using the fully grouted method and maintained at Boddington by a contractor, to inform the design of earthworks for the HS2 railway.The measurements have been adjusted for changes in atmospheric pressure.The data are stored as .csv.These measurements are from a limited number of piezometers installed at Boddington and do not represent the full number of measurements undertaken at Boddington for HS2. They were located below the excavation level of the trial cutting (i.e., below 123 m AOD) and beneath the centre of the trial embankment (i.e., below the original ground surface at 122 m AOD). Piezometers that malfunctioned are not included in this dataset
Dataset for "Optical absorption spectrum reveals gaseous chlorine in anti-resonant hollow core fibres"
No full textWe have observed unexpected spectral attenuation of ultraviolet light in freshly drawn hollow core optical fibres, which we measure through a short length of fibre using a bentham monochromator and a broadband laser driven light source (EQ-99X). When the fibre ends are left open to atmosphere, this loss feature dissipates over time. The loss matches the absorption spectrum of gaseous (molecular) chlorine and, given enough time, the transmission spectrum of the fibre recovers to that expected from the morphological structure of the fibre. This dataset contains the spectral data output from the optical fibre that was analyzed to show this.The light from a broadband laser driven light source was coupled into a hollow core optical fibre length, and the output spectrum was measured by a bentham monochromator. Transmission through a 2 metre length of fibre, which was freshly fabricated, was measured over the course of 4 days.Equipment used: custom built Bentham monochromator, EQ-99X LDLS from Energetiq/Hamamatsu. Fujikura splicer was used to measure the fibre cleaves after measurements
GJMeijer/root-biomechanics-anatomy: v1.0.0
No full textQuantifying the stability of individual plants or their contribution to soil reinforcement against erosion or landslides requires an understanding of the tensile properties of their roots. This work developed a new analytical model to understand the tensile stress–strain behaviour of a single root axis, which is the first to incorporating root anatomical features, in order to reduce the existing uncertainty in predictions.
This data repository contains all data and analysis for the publication "Root anatomy and biomechanical properties: improving predictions through root cortical and stele properties".Please see the methodology in the associated paper
Dataset for the Web of Influence in the Syrian Conflict 2015-2020
No full textThis dataset on the Syrian conflict from 2015-2020 represents the merging of core empirical data on the Web of Influence theory in Syria. Data sources include official press releases, news articles, and institutional reports. The dataset consists of twelve data tables, where "hegemons" refers to the US, Russia, Turkey, and Iran; and "agents" refers to the Assad regime, YPG/SDF, HTS, and SNA.Data collection was from official press releases, news articles, and institutional reports.
The full methodology can be found in the associated thesis
Dataset for "The effects of isolated game elements on adherence rates in food response inhibition training"
No full textThis dataset contains self-report data for 252 participants on snacking behaviour, food evaluations, daily training accuracy, and daily training motivation.Please see the associated paper
Dataset for "Exploring the Role of Guidelines in Contributing to Medication Errors: A Descriptive Analysis of National Patient Safety Incident Data"
No full textThe National Reporting and Learning System (NRLS) collects data on national patient safety incident reports that are voluntarily and anonymously reported by staff working in the National Health Service (NHS) and other healthcare organisations in England and Wales. The reports include incidents and near misses. The report template allows the input of categorical data (e.g. incident type and location) as well as free text fields that allow staff to describe the incident, its perceived causes and the actions taken. Incidents within the database are classified by the reporter as having been linked to death, severe harm, moderate harm, low harm or no harm.
These data describe medication errors reported to the NRLS from 1st January 2016 to 31st December 2021, that might be associated with difficulties finding or understanding information in clinical guidelines. They includes details of the context of each incident (e.g. location, clinical speciality, drug involved) and additional coding of free-text variables (now redacted) showing whether the incident was related to difficulties finding or understanding information in clinical guidelines.To identify incident reports relating to guideline use, a free text field search was conducted by the national NRLS team using the following search terms related to medicines guidelines commonly used in England and Wales: BNF, British National Formulary, Guideline, NICE, SPC, SmPC, Summary of Product Characteristics, CKS, Clinical Knowledge Summary/ies, Medusa, Injectable Medicines Guide and IMG. The search was restricted to incidents reported to the NRLS between 1st January 2016 and 31st December 2021 (inclusive) that had been classified by the reporter as medication incidents. The identified incident reports, including both categorical and free-text data fields, were then supplied to the research team.No changes before analysis. Free-text fields were redacted before publication, to prevent identification of incidents (as required by data sharing agreement with NHS England). Uncommon drug names were also redacted for similar reasons.No unusual software required.See attached README.txt file
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