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Dataset results
12 results for “reference software”
Reference data and analysis software for "Four-color single-molecule imaging with engineered tags resolves the molecular architecture of signaling complexes in the plasma membrane"
<p>Reference data set for the single molecule co-tracking analysis presented in "Four-color single-molecule imaging with engineered tags resolves the molecular architecture of signaling complexes in the plasma membrane". Corresponding author for further inquiries:</p> <p>Prof. Dr. Jacob Piehler</p> <p>University of Osnabrück, Department of Biology/Chemistry, Division of Biophysics, Barbarastr. 11, 49076 Osnabrück, Germany</p> <p>https://www.biophysik.uni-osnabrueck.de/</p>
Reference datasets for consistency tests of GENAPOPOP 1.0 software: a user-friendly software to analyse genetic diversity and structure in partially clonal and selfed polyploid organisms.
<p>Datasets companion of the manuscript entitled GenAPoPop 1.0: a user-friendly software to analyse genetic diversity and structure in partially clonal and selfed polyploid organisms, used to achieve consistency test with Spagedi 1.5 software, and used as reference datasets to demonstrate the new possibilities allowed by GenAPoPop software.</p> <p>Raw datasets used for testing GenAPoPop 1.0, A user-friendly software for easily compute genetic analyses of autopolyploid populations packaged for Linux, MacOS and Windows; Results obtained from Spagedi 1.5 (Hardy & Vekemans 2001) and GenAPoPop1.0.</p> <p>Four pseudo-observed genotyping autotetrapolyploid SNP datasets, corresponding respectively to panmictic (A), highly clonal (B), highly selfed (C) and half-clonal-half-selfed (D) reproductive mode scenario. In all these four scenarios, we simulated two populations of 100 individuals each, connected with a migration rate of 0.01 and mutating at a rate of 0.01, genotyped at 10 SNPs. Datasets were recorded 1000 generations after an initial randomly drawing population with equal allele frequencies.</p> <p>One SNP tetraploid genotyping dataset from two French <em>Ludwigia grandiflora subsp. hexapetala</em> populations (aquatic plant from the Angiosperm clade): two populations in which we collected 75 individuals, each genotyped with 36 SNPs using the Hiplex method allowing confident allele dosage (Delord et al. 2018).</p> <p>One microsatellite tetraploid genotyping dataset on two Aulactinia stella populations (sea-anemone from the Cnidaria phylum), sampled on the coast of the arctic ocean. One population of 21 individuals and one population of 15 individuals, both genotyped with 10 microsatellites.</p> <p>We also report here the consistency tests with GenAlex and Spagedi, results of analyses (GPP tab) on 6300 independant simulations and inferences of the quantitative reproductive modes using the bayesian method on CEMP tab made on 6300 another independant simulations.</p>
Automated improvement of stickleback reference genome assemblies with Lep-Anchor software
Open the record for dataset details and reuse information.
Paper Repository and References for "Early software defect prediction: A systematic map and review"
<p>Context: Software defect prediction is a trending research topic, and a wide variety of the published papers focus on coding phase or after. A limited number of papers, however, includes the prior (early) phases of the software development lifecycle (SDLC).<br> Objective: The goal of this study is to obtain a general view of the characteristics and usefulness of Early Software Defect Prediction (ESDP) models reported in scientific literature. <br> Method: A systematic mapping and systematic literature review study has been conducted. We searched for the studies reported between 2000 and 2016. We reviewed 52 studies and analyzed the trend and demographics, maturity of state-of-research, in-depth characteristics, success and benefits of ESDP models. <br> Results: We found that categorical models that rely on requirement and design phase metrics, and few continuous models including metrics from requirements phase are very successful. We also found that most studies reported qualitative benefits of using ESDP models.<br> Conclusion: We have highlighted the most preferred prediction methods, metrics, datasets and performance evaluation methods, as well as the addressed SDLC phases. We expect the results will be useful for software teams by guiding them to use early predictors effectively in practice, and for researchers in directing their future efforts.</p>
Software Variability Tools SMS and Survey: List of References and Tools
<p>Software Variability Tools SMS and Survey: List of References and Tools</p>
Reference libraries for execute the Annopipe software
<p>Libraries needed to run the software ANNOPIPE, available in the following link:</p> <p>https://github.com/celiosantosjr/annopipe</p>
OBR running reference data and software
<p>These files contain the data/software that was obtained/used in a research project using an<br> Optical Backscatter Reflectometer (OBR) to obtain strain data of curing epoxy.</p> <p>ATTENTION: The archive that contains the raw-measurement files is several GB big. It may take a while to open it.</p> <p>The results are to be published and the journal/article-title will be added as soon as possible.</p> <p>Please, see the README-Files for additional information.</p> <p>The software is published under the GNU General Public License, version 3.<br> For the data the stated license is valid.</p>
3D cranial landmark coordinates from the Athens Collection. A modern Greek population reference dataset for testing 3D-ID software
<p>The present dataset comprises the landmark coordinates of 158 intact crania (80 males and 78 females) of adult individuals from the Athens Collection. The 3D coordinates of up to 34 landmarks have been extracted from high quality textured 3D models produced with photogrammetry. The dataset aims to evaluate the correct classification performance of 3D-ID software. Hence, the dataset contains the landmark 3D coordinates both in Meshlab's PickedPoints files (.pp) but also in 3D-ID's input text format (.3did). The dataset is accompanied by certain GNU Octave scripts and functions used for data conversion and integrity check. For more details see the Dataset Description pdf.</p>
InSAR-derived horizontal velocities in a global reference frame - final output dataset and software codes
<p>The output dataset as described in the article in title, extracted from COMET LiCSAR dataset in March 2021.</p> <p>We also provide a snapshot of the python3 codes used to generate the output dataset.</p> <p>Contents and description of the dataset:</p> <p>uaz_values.csv<br> ==============<br> Contains u_az values and other relevant data in columns:<br> frame - ID of related frame (same as in frame_values.csv)<br> esd_master - reference acquisition epoch<br> epoch - date of acquisition epoch<br> daz_total_wrt_orbits - original extracted azimuth shift w.r.t. orbits<br> daz_cc_wrt_orbits - original extracted azimuth shift w.r.t. orbits from intensity cross-correlation (prior to spectral diversity)<br> drg_wrt_orbits - original extracted range shift w.r.t. orbits<br> orbits_precision - precision of applied orbits (P..precise, R..restituted)<br> version - orbits version<br> daz_iono_grad_mm - u_az from ionosphere propagation<br> tecs_A - estimated TECs at centre of hyphotetical burst A<br> tecs_A - estimated TECs at centre of hyphotetical burst B<br> daz_mm_notide - u_az after correction of solid-earth tides<br> daz_mm_notide_noiono_grad - u_az after correction of solid-earth tides and ionospheric gradient propagation<br> is_outlier_* - flag of outlier datapoint, as identified through Huber loss function (related to velocity estimates in frame_values.csv)</p> <p>frame_values.csv<br> ================<br> Contains along-track velocity estimates and other relevant data in columns:<br> frame - ID of related frame<br> master - reference acquisition epoch<br> center_lon - longitude coordinate of the frame centre<br> center_lat - latitude coordinate of the frame centre<br> heading - satellite heading angle (from the geograpic north)<br> azimuth_resolution - extracted azimuth pixel spacing (in metres)<br> range_resolution - extracted range pixel spacing (in metres)<br> avg_incidence_angle - average incidence angle of the frame<br> centre_range_m - approximate slant distance between the satellite and centre of the frame<br> centre_time - acquisition time (UTC) of centre of the frame at the reference epoch (appliable to other epochs)<br> s1AorB - flag of S-1A or B of the reference epoch<br> slope_plates_vel_azi_itrf2014 - along-track velocity estimated from ITRF2014 plate motion model<br> slope_daz_mm_mmyear - estimated along-track velocity from the original u_az values (in mm/year)<br> slope_daz_mm_notide_mmyear - estimated along-track velocity from u_az values after correction on solid-earth tides<br> slope_daz_mm_notide_noiono_grad_mmyear - estimated along-track velocity from u_az values after correction on solid-earth tides and ionosphere<br> intercept_* - corresponding intercept (in mm)<br> *_RMSE_selection - RMSE of outlier-free u_az data samples<br> *_count_selection - count of outlier-free u_az data samples used to estimate corresponding velocity<br> *_RMSE_mmy_full - RMSE from all u_az data samples applying corresponding velocity and intercept (in mm/year)</p> <p><br> decomposed_grid.csv<br> ===================<br> Contains decomposed velocities (in 250x250 km spacing grid) and other relevant data in columns:<br> count - count of frames used for the decomposition<br> opass - orbital pass codes of the input frames (D..descending, A..ascending)<br> centroid_lon - longitude coordinate of the grid cell centre<br> centroid_lat - latitude coordinate of the grid cell centre<br> VEL_N_noTI - northward velocity component from data corrected for solid-earth tides and ionosphere<br> VEL_E_noTI - eastward velocity component from data corrected for solid-earth tides and ionosphere<br> VEL_N_noT - northward velocity component from data corrected for solid-earth tides<br> VEL_E_noT - eastward velocity component from data corrected for solid-earth tides<br> ITRF_N - northward velocity component from averaged ITRF2014 plate motion model<br> ITRF_E - eastward velocity component from averaged ITRF2014 plate motion model<br> *RMSE_* - RMSE of corresponding data</p>
Becoming LTi - Dataset : Reference files and Software Containers
<p><strong>Dataset from article</strong> : Distinct waves from the hemogenic endothelium give rise to layered Lymphoid Tissue Inducer cell ontogeny</p> <p><strong>Summary:</strong> During embryogenesis Lymphoid Tissue Inducer (LTi) cells are essential for lymph node organogenesis. These cells are part of the Innate Lymphoid Cell (ILC) family. Although their earliest embryonic hematopoietic origin is unclear, other innate immune cells were shown to be derived from both early hemogenic endothelium in the yolk-sac as well as the aorta-gonad-mesonephros. A proper model to discriminate between these locations was unavailable. In this study, using a new Cxcr4-CreERT2 lineage tracing model, we identify a major contribution from embryonic hemogenic endothelium, but not yolk-sac, towards the LTi progenitors. Conversely, embryonic LTi cells are replaced by hematopoietic stem cell derived cells in adult. We further show that within the fetal liver common lymphoid progenitors differentiate into highly dynamic alpha-lymphoid precursor cells, which at this embryonic stage preferentially mature into LTi precursors and establish their functional LTi cell identity only after reaching the periphery.</p> <p><strong>Data </strong>:</p> <p>1. SPlab_BecomingLTi_01_Reference.tar.gz : Reference files used for the data analysis.</p> <p>2. SPlab_BecomingLTi_02_containers.tar.gz : Singularity and Docker images used for the data analysis.</p>
two-day International Online Workshop on Reference Management and Zotero Software conducted on 29-30 May 2021.
<p>two-day International Online Workshop<br>on Reference Management and Zotero Software conducted on 29-30<br>May 2021.</p>
Raw Data for the article: Local diagnostic reference levels for pediatric retrograde wedge portography interventional procedures using a dose monitoring software at a transplantation institute
<p>The aim of this work was to establish local diagnostic reference levels (DRLs) for retrograde wedge portography (RWP) performed on pediatric patients assessing the usefulness of radiation dose monitoring software in the establishing process. Between September 2016 and April 2020, 66 consecutive RWP were performed at a transplantation institute and were included in our study. Patients were divided in three groups according to age: n = 25 infants, n = 20 middle childhood and n = 21 early adolescence. The third quartile of both Air Kerma at the reference point (Ka,r) and air kerma-area product (PKA) were evaluated to establish local DRLs (lDRLs). In addition, to control high Ka,r levels during procedures, the software notified to operators if Ka,r exceeded the dose 'alert' threshold set at 2 Gy. lDRLs were established for all three groups using PKA and Ka,r: infant group: 5.6 Gy.cm 2 and 0.034 Gy; middle childhood: 6.4 Gy.cm2 and 0.018 Gy and early adolescence: 12.8 Gy.cm2 and 0.059 Gy. The dose threshold 'alert' was never encountered (alert quota: 0%). The dose monitoring system supports the feasibility of accurate and easier lDRLs' establishment.</p>
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.