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opencc-zeroSep 2024View details →

Training and Testing Data for AP-SVM

The files in here contain training and testing data for the AP-SVM data cleaning model, including datasets curated for leakage and sacrifice studies. Raw and digital signal processed files are included

opencc-by-4.0Jun 2024View details →

Test data for Galaxy IUC Seurat_v5 tools

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Test data for Galaxy IUC Seurat Inspect & Manipulate Tool (Merge)

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Chemical trajectory data file - test version

Set of chemical trajectories for primordial gas generated with SGChem (CHEMISTRYNETWORK == 1), for use to train chemistry emulators. See CODES-Benchmark github repository for format details etc. Note: test data, use at your own risk.

HyPyRameter Test Data

Dataset used to produce figures and results in the HyPyRameter publication. These files are in ENVI .img format with associated metadata in the .hdr files. These file can be directly passed to the <a href="https://github.com/Michael-S-Phillips/HyPyRameter">HyPyRameter</a> cubeParamCalculator. Below is a table describing each file and its processing. <table> <tbody> <tr> <td>Image Name</td> <td>Description</td> </tr> <tr> <td><a href="https://zenodo.org/api/records/13786090/draft/files/TN_cropped_swir_image.img/content" target="_blank" rel="noopener noreferrer">TN_cropped_swir_image.img</a></td> <td>Tripod-based <a href="https://www.hyspex.com/hyspex-products/hyspex-mjolnir/hyspex-mjolnir-vs-620/">HySpex VS 620</a> spectral image cube from a roadcut on TN52 near Knoxville, TN. These data include the shortwavelength infrared (SWIR) bands, ranging from 970.0 nm – 2500.0 nm. Data were processed through proprietary software provided by Norsk Elektro Optikk (NEO) to radiance on sensor, and further processed to reflectance through an empirical line correction in IDL/ENVI.</td> </tr> <tr> <td><a href="https://zenodo.org/api/records/13786090/draft/files/vnir_cropped_namafjall.img/content" target="_blank" rel="noopener noreferrer">vnir_cropped_namafjall.img</a></td> <td>Drone-based HySpex spectral image cube from a fumarolic system near Namafjall, Iceland. These data include the visible to near-infrared (VNIR) wavelength bands, ranging from 403.7 nm – 983.3 nm. Data were processed through proprietary software provided by Norsk Elektro Optikk (NEO) to radiance on sensor, and further processed to reflectance through an empirical line correction in IDL/ENVI.</td> </tr> <tr> <td><a href="https://zenodo.org/api/records/13786090/draft/files/Namafjall_Drone_Scene_Inverse_MNF.img/content" target="_blank" rel="noopener noreferrer">Namafjall_Drone_Scene_Inverse_MNF.img</a></td> <td>Drone-based HySpex spectral image cube from a fumarolic system near Namafjall, Iceland. These data include SWIR wavelength bands, ranging from 970.0 nm – 2500.0 nm. Data were processed through proprietary software provided by Norsk Elektro Optikk (NEO) to radiance on sensor, and further processed to reflectance through an empirical line correction in IDL/ENVI. An additional noise removal step was performed via an inverse minimum noise fraction transformation (forward MNF was applied, noise bands were removed, then an inverse transform using only non-noise bands was performed).</td> </tr> <tr> <td><a href="https://zenodo.org/api/records/13786090/draft/files/EMIT_L2A_RFL_001_20230329T145406_2308809_052_reflectance_cropped.img/content" target="_blank" rel="noopener noreferrer">EMIT_L2A_RFL_001_20230329T145406_2308809_052_reflectance_cropped.img</a></td> <td>Satellite based EMIT (<a href="https://earth.jpl.nasa.gov/emit/">Earth Surface Mineral Dust Source Investigation</a>) spectral image cube, covering the wavelength range 381.0 nm – 2492.9 nm. L2A surface reflectance data were processed by the EMIT team, downloaded from their data repository, and converted to ENVI .img format in python.</td> </tr> </tbody> </table>

The supplementary test data of GeoNet

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opencc-by-4.0Oct 2024View details →

LifeDetect DNA Test 1 data

Before diving into the data please refer to the description of the <a href="https://mbd.pages.rwth-aachen.de/dlr_rdm/data/LifeDetect/intro.html">LifeDetect</a> system and the <a href="https://mbd.pages.rwth-aachen.de/dlr_rdm/">TRIPLE</a> project. The data represents the DNA data acquired. The measurement was carried out on 10.09.2024 in the Neumayer station located in Antarctica under the campaign name TRIPLE-Phase-2. The surface ice temperature was 240K, atmospheric pressure 1 bar, and 60% humidity. The readings were taken on the ground as the IceCraft moved vertically downwards by melting the ice. The data obtained can also be theoretically assessed here(link). keywords: DNA data, Life, Organic

opencc-by-4.0Oct 2024View details →

Data testing of article research tittle "Online GIS and Remote Sensing-Based Mapping of Flood Vulnerability in Samarinda Seberang Subdistrict"

This dataset explains validation testing in a study of the Samarinda Seberang flood vulnerability map. There are two test methods, namely the Kappa accuracy test and the 3D simulation visualization test. The Kappa accuracy test tab displays a table of Kappa calculation results, and the second tab contains a 3D simulation scenario image.

openapache2.0Jul 2024View details →

Data for "Information sharing within a social network is key to behavioral flexibility – lessons from mice tested under semi-naturalistic conditions"

Data for "Information sharing within a social network is key to behavioral flexibility – lessons from mice tested under semi-naturalistic conditions", currently under review in Science Advances.

opencc-by-4.0Nov 2024View details →

Test data for HERRO

Some read data that can be used for a test run of HERRO. e.g.  herro inference -t 4 -m model -d 2,3 -b 32 HG002.chr19_10M_12M.fastq.gz output.fasta   The data is a part of the data from  https://s3-us-west-2.amazonaws.com/human-pangenomics/index.html?prefix=submissions/5b73fa0e-658a-4248-b2b8-cd16155bc157--UCSC_GIAB_R1041_nanopore/HG002_R1041_UL/dorado/v0.4.0_wMods/ , preprocessed with adaptor trimming/splitting and filtered to at least 10000bp and Q10, and contains reads (~40x) that are aligned to 10-12Mbp of chr19 maternal/paternal of HG002 v1.0.1 assembly from https://github.com/marbl/HG002

opencc-zeroDec 2016View details →

Data from: A test of the hierarchical model of litter decomposition

Our basic understanding of plant litter decomposition informs the assumptions underlying widely applied soil biogeochemical models, including those embedded in Earth system models. Confidence in projected carbon cycle-climate feedbacks therefore depends on accurate knowledge about the controls regulating the rate at which plant biomass is decomposed into products such as CO2. Here, we test underlying assumptions of the dominant conceptual model of litter decomposition. The model posits that a primary control on the rate of decomposition at regional to global scales is climate (temperature and moisture), with the controlling effects of decomposers negligible at such broad spatial scales. Using a regional-scale litter decomposition experiment at six sites spanning from northern Sweden to southern France – and capturing both within and among site variation in putative controls – we find that contrary to predictions from the hierarchical model, decomposer (microbial) biomass strongly regulates decomposition at regional scales. Further, the size of the microbial biomass dictates the absolute change in decomposition rates with changing climate variables. Our findings suggest the need for revision of the hierarchical model, with decomposers acting as both local- and broad-scale controls on litter decomposition rates, necessitating their explicit consideration in global biogeochemical models.

opencc-zeroFeb 2020View details →

Data from: Population-based screening for hepatitis C antibodies and active infection using a point-of-care test in a low prevalence area

Background. Data on the true prevalence of hepatitis C virus (HCV) infection in the general population is essential to health policies. We evaluated a program implementing free universal HCV screening using a non-invasive point-of-care test (POCT) (OraQuick-HCV rapid test) in oral fluid in an urban area in Valencia, South-Eastern Spain. Methods. A cross-sectional study was performed during 2015-2017. Free HCV screening was offered by regular mail to 11,500 individuals aged 18 and over, randomly selected from all census residents in the Health Department. All responding participants filled in a questionnaire about HCV infection risk factors and were tested in their tertiary Hospital. In those with a positive POCT, results were confirmed by enzyme-immunoassay and HCV-RNA. Results. 1,206 persons agreed to participate (response rate: 11.16%). HCV antibodies were detected in 19 (1.60%) cases (age-sex standardized rate: 1.31%; 95%CI: 0.82-2.07), but only 8 showed positive HCV-RNA (age-sex standardized rate: 0.56%; 95%CI: 0.28-1.14). The majority (89%) of the cases were born before 1965 and 74% had at least one known risk factor for HCV infection. All anti-HCV positive individuals were already aware of their infection, and no undiagnosed cases were detected. The performance of the POCT was excellent for detecting active infection. Conclusions. These preliminary data suggest that HCV population screening with a POCT is feasible but, in our setting, mailing recruiting is not effective (11% response rate). The low prevalence of HCV antibodies and active infection in the participant population (with no new diagnoses made) suggests that, in our setting, underdiagnosis may be uncommon. Files uploaded include the study database (Stata v.13) and the do.file of the study.

openother-openJul 2021View details →

Data & Code from: Crop mixtures: does niche complementarity hold for belowground resources? an experimental test using rice genotypic pairs

Data & Code for the study "Crop mixtures: does niche complementarity hold for belowground resources? an experimental test using rice genotypic pairs" Data: "Rice_traits.csv": this file contains trait and productivity data measured at the individual plant level. It has one row per plant and one column per trait. Column headers: "IDplant": unique plant identifier (1 to 200) "IDpot": pot identifier with two plants per pot (1 to 100) "Bloc": bloc identifier, with 20 pots per bloc (A, B, C, D, E) "Treatment": P0 vs P+ = no P supply vs P supply "Asso": pot type, either monoculture (M) or mixture (P) "IDcouple": concatenation of the identifiers of the two genotypes in a pot (I64 = IR64, I64+=IR64 introgressed with QTL9, Pdi=Padi, Ktn=Ketan) "IDgeno": focal genotype identifier (I64 = IR64, I64+=IR64 introgressed with QTL9, Pdi=Padi, Ktn=Ketan) "IDnei": neighbour genotype identifier (I64 = IR64, I64+=IR64 introgressed with QTL9, Pdi=Padi, Ktn=Ketan) "BIOM_above": aboveground biomass (g) "Tillers": number of tillers "PH": Plant height (cm) "Biovolume": biovolume (m3) "SLA": Specific Leaf Area (m2/kg) "RB_top": Root biomass between 0 and 20 cm below the soil surface(g) "RB_deep: Root biomass between 20 and 60 cm below the soil surface(g) (!!! Only measured at the pot-level) "D_ad"/"D_bas": Mean root diameter (mm) of adventitious/basal roots, respectively "SRL_ad"/"SRL_bas": Specific Root Length (m/g) of adventitious/basal roots, respectively "RTD_ad"/"RTD_bas": Root Tissue Density (mg/cm3) of adventitious/basal roots, respectively "RBI_ad"/"RBI_bas": Root Branching Intensity (nb tips/cm) of adventitious/basal roots, respectively "PfR_ad"/"PfR_bas": Proportion of fine roots (diameter < 0.1 mm) (%) in adventitious/basal roots, respectively Code: "Rice_mixtures_analysis.R": this file contains the main statisticl analysis presented in the study. It uses "Rice_traits.csv" as an input.

Supplementary data for "Enhancing Resource-based Test Case Generation For RESTful APIs with SQL Handling"

Supplement to: Enhancing Resource-based Test Case Generation For RESTful APIs with SQL Handling In this repository, we provide tests and their coverage reports (conducted by Intellij coverage reports) that are used in the Discussion section of the paper.

opencc-zeroJul 2021View details →

Data from: Detection of the endangered European weather loach (Misgurnus fossilis) via water and sediment samples: testing multiple eDNA workflows.

The European weather loach (Misgurnus fossilis) is classified as highly endangered in several countries of Central Europe. Populations of M. fossilis are predominantly found in ditches with low water levels and thick sludge layers and are thus hard to detect using conventional fishing methods. Therefore, environmental DNA (eDNA) monitoring appears particularly relevant for this species. In previous studies, M. fossilis was surveyed following eDNA water sampling protocols, which were not optimized for this species. Therefore, we created two full factorial study designs to test six different eDNA workflows for sediment samples and twelve different workflows for water samples. We used qPCR to compare the Threshold cycle (Ct) values of the different workflows, which indicate the target DNA amount in the sample, and spectrophotometry to quantify and compare the total DNA amount inside the samples. We analyzed 96 water samples and 48 sediment samples from a pond with a known population of M. fossilis. We tested several method combinations for long-term sample preservation, DNA capture and DNA extraction. Additionally, we analyzed the DNA yield of samples from a ditch with a natural M. fossilis population monthly over one year to determine the optimal sampling period. Our results showed that the long-term water preservation method commonly used for eDNA surveys of M. fossilis did not lead to optimal DNA yields, and we present a valid long-term sample preservation alternative. A cost-efficient high salt DNA extraction led to the highest target DNA yields and can be used for sediment and water samples. Furthermore, we were able to show that in a natural habitat of M. fossilis, total and target eDNA were higher between June and September, which implies that this period is favorable for eDNA sampling. Our results will help to improve the reliability of future eDNA surveys of M. fossilis.

Test Data Repo

Source Data for forth coming publication by Morin and others 2021?

CSV-format data for: Increased mortality in community-tested cases of SARS-CoV-2 lineage B.1.1.7

This is a supplementary upload to <a href="https://zenodo.org/record/4579857">https://zenodo.org/record/4579857</a>. This upload provides the same anonymised individual-level SARS-CoV-2 testing data for England as that earlier upload provided, but provides it in CSV format (comma-separated values) instead of in the previous QS format. The QS format requires specialised software (e.g. the qs package for R) to read, so I am providing the data in CSV format to facilitate access to and re-use of the data. Please see the original data upload, <a href="https://zenodo.org/record/4579857">https://zenodo.org/record/4579857</a>, the associated journal article, <a href="https://www.nature.com/articles/s41586-021-03426-1">Increased mortality in community-tested cases of SARS-CoV-2 lineage B.1.1.7</a>, and the project's Github repository, <a href="https://github.com/nicholasdavies/cfrvoc">https://github.com/nicholasdavies/cfrvoc</a>, for full details.

opencc-zeroDec 2016View details →

Data from: A test of genomic modularity among life-history adaptations promoting speciation with gene flow

Speciation with gene flow may require adaptive divergence of multiple traits to generate strong ecologically based reproductive isolation. Extensive negative pleiotropy or physical linkage of genes in the wrong phase affecting these diverging traits may therefore hinder speciation, while genetic independence or "modularity" among phenotypic traits may reduce constraints and facilitate divergence. Here, we test whether the genetics underlying two components of diapause life history, initial diapause intensity and diapause termination timing, constrain differentiation between sympatric hawthorn and apple-infesting host races of the fly Rhagoletis pomonella through analysis of 10,256 SNPs measured via genotyping-by-sequencing (GBS). Loci genetically associated with diapause termination timing were mainly observed for SNPs mapping to chromosomes 1–3 in the genome, most notably for SNPs displaying higher levels of linkage disequilibrium (LD), likely due to inversions. In contrast, selection on initial diapause intensity affected loci on all five major chromosomes of the genome, specifically those showing low levels of LD. This lack of overlap in genetically associated loci suggests that the two diapause phenotypes are largely modular. On chromosome 2, however, intermediate level LD loci and a subgroup of high LD loci displayed significant negative relationships between initial diapause intensity and diapause termination time. These gene regions on chromosome 2 therefore affected both traits, while most regions were largely independent. Moreover, loci associated with both measured traits also tended to exhibit highly divergent allele frequencies between the host races. Thus, the presence of nonoverlapping genetic modules likely facilitates simultaneous, adaptive divergence for the measured life-history components.

Understanding practitioners' strategies to handle test smells: a multi-method study [DATA]

Test smells are poor design and implementation choices that can affect the test code's understanding and maintainability. Recent studies show the industry is not aware of the test smells concept, while software engineers commonly encounter obstacles to maintain test code. This study investigated test creation and maintenance strategies through developers' perception of eight test smells types. We surveyed 87 software testers and interviewed eight to understand their view on test smells in practice. Our results show that most participants use manual strategies for creating and maintaining test cases. Based on data captured from software testers' perspectives, this study contributes with possible directions and treatments to analyze test smells, seeking to understand how the test affects and potential solutions for test smells.