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1,249 results for “R data”
data for R competition analysis
<p>data of freshwater snails for competition analysis in R</p>
Data and R scripts for the article "Revisiting the Phanerozoic rock-diversity relationship"
<p>The file contains original download of occurrences from the GBDB (Geobiodiversity Database) used for all analysis and the result tables used for the figures. Code is also included to reproduce the analysis. </p>
Supplementary material 4 from: Luo T, Mao M-L, Lan C-T, Song L-X, Zhao X-R, Yu J, Wang X-L, Xiao N, Zhou J-J, Zhou J (2023) Four new hypogean species of the genus Triplophysa (Osteichthyes, Cypriniformes, Nemacheilidae) from Guizhou Province, Southwest China, based on molecular and morphological data. ZooKeys 1185: 43-81. https://doi.org/10.3897/zookeys.1185.105499
Comparison of the diagnostic features of the four new species described here with those selected for the 35 recognized hypogean species of the genus Triplophysa
Supplementary material 1 from: Luo T, Mao M-L, Lan C-T, Song L-X, Zhao X-R, Yu J, Wang X-L, Xiao N, Zhou J-J, Zhou J (2023) Four new hypogean species of the genus Triplophysa (Osteichthyes, Cypriniformes, Nemacheilidae) from Guizhou Province, Southwest China, based on molecular and morphological data. ZooKeys 1185: 43-81. https://doi.org/10.3897/zookeys.1185.105499
Boxplots of morphometrics based on 35 morphometric measurements distinguishing T. anlongensis sp. nov., T. cehengensis sp. nov., T. panzhouensis sp. nov., T. rongduensis sp. nov., T. baotianensis, and T. zhenfengensis
Supplementary material 5 from: Luo T, Mao M-L, Lan C-T, Song L-X, Zhao X-R, Yu J, Wang X-L, Xiao N, Zhou J-J, Zhou J (2023) Four new hypogean species of the genus Triplophysa (Osteichthyes, Cypriniformes, Nemacheilidae) from Guizhou Province, Southwest China, based on molecular and morphological data. ZooKeys 1185: 43-81. https://doi.org/10.3897/zookeys.1185.105499
Morphological comparison of T. cehengensis sp. nov. (TC), T. rongduensis sp. nov. (TR), T. panzhouensis sp. nov. (TP), T. anlongensis sp. nov. (TA), T. baotianensis (TB), and T. zhenfengensis (TZ)
Supplementary material 6 from: Luo T, Mao M-L, Lan C-T, Song L-X, Zhao X-R, Yu J, Wang X-L, Xiao N, Zhou J-J, Zhou J (2023) Four new hypogean species of the genus Triplophysa (Osteichthyes, Cypriniformes, Nemacheilidae) from Guizhou Province, Southwest China, based on molecular and morphological data. ZooKeys 1185: 43-81. https://doi.org/10.3897/zookeys.1185.105499
Results and percentage of variance explained by principal component and discriminant function analyses
R code and supplementary data for : "A framework for mapping conservation agricultural fields using time-series optical and radar imagery"
<p>Source code and cover crop maps for the paper "A framework for mapping conservation cropland using optical and radar time series imagery." (Zhou et al., 2025)</p> <p>https://doi.org/10.1016/j.rse.2025.114858</p> <p> </p> <p>The entire workflow consists of these steps:</p> <p>1. Obtain satellite data from Google Earth Engine platform. script path: (<a href="https://code.earthengine.google.com/?scriptPath=users%2Fyuez9466%2FCApractice%3ANDVI">https://code.earthengine.google.com/?scriptPath=users%2Fyuez9466%2FCApractice%3ANDVI</a>). You need to obtain the NDVI, NBR2, Sentinel-1 Radar dataset and Precipitation data for your research area and seltected time interval. Download .csv data from Google Cloud, then convert the format of the data for following calculations.(see 1_import_transfer_data.R)</p> <p>2. Obtain the annual crop types in your study area, either through agricultural census data or remote sensing predictions (not mentioned in this paper), calculate organic carbon input based on the crop types. Extracting seasons based on time-series NDVI values using phenofit package. (see 2_NDVI_Smooth_Divide_seasons.R)</p> <p>3. Calculating the length of the cover crop growing season and periods of bare soil, also get the nessasary covariates for tillage model meanwhile. (see 3_CC_BS_length_add_Tillage.R)</p> <p>4. Build a tillage model. (see 4_Build_Tillage_model)</p> <p>Build your own conservation agriculture fields model.</p>
Data and R-Scripts for the manuscript "Arctic tundra ecosystems under fire – potential trajectories for stable state shifts"
Open the record for dataset details and reuse information.
Data and R scripts supporting the article: "Evolution of genetic (co)variances during the worldwide invasion of Drosophila suzukii"
<p>This repository contains raw data, processed data (.RData files) and R scripts necessary to replicate the analyses, figures and tables from the manuscript "Evolution of genetic (co)variances during the worldwide invasion of Drosophila suzukii" (Fraimout, A., Chantepie, S., Navarro, N., Teplitsky, C. & Debat, V.).</p> <p>Each R script contains detailed information about the location of each analysis in the manuscript (i.e., line numbering and paragraph title as in Fraimout et al. 2024: https://www.biorxiv.org/content/10.1101/2024.01.02.573869v1)</p>
Popek, R., Roy, A., Mandal, M., et al. (2024) Enhancing Urban Sustainability: How Spatial and Height Var-iability of Roadside Plants Improves Pollution Capture for Greener Cities - DATA
Open the record for dataset details and reuse information.
Raw data for TrackMate tracking output and R script for data analysis
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Gładysz, K., Wrochna M., & Popek, R. (2024) Tracking Particulate Matter Accumulation on Green Roofs: A Comparative Study at Warsaw University Library - DATA
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An evidence map of research assessing the effects of timber harvesting on water quality, biotic and biodiversity indicators in running waters: Data and R code
<p>These are the data and R code that accompany the Forest Ecology and Management publication titled "An evidence map of research assessing the effects of timber harvesting on water quality, biotic and biodiversity indicators in running waters". </p>
R script and Data
<p>Full R project with Rmarkdown script and Data</p>
Data and R scripts for "Allometric scaling of hyporheic respiration across basins in the Pacific Northwest USA" submission (Release L1)
<p>This repository holds data and scripts used for the analyses presented in a manuscript entitled "Allometric scaling of hyporheic respiration across basins in the Pacific Northwest United States" in revision in JGR Biogeosciences.</p>
Compendium of R code and data for Mycenaean roads in the Peloponnese, Greece: least-cost path modelling using R and Movecost
<p><strong>Abstract</strong></p> <p><em>This study evaluates multiple methodologies and their variants for Least Cost Path (LCP) modelling, applied in combination with different Digital Elevation Models (DEMs), to explore the broader applicability of the Movecost package, using the Mycenaean road networks of the Peloponnese (Greece) as case studies. Using a geographic information system (GIS) and the R programming environment, this paper employs the Movecost package for the R statistical package to simulate ancient routes based on existing road segments. By integrating a variety of functions and parameters, this study evaluates their effectiveness across different DEMs, including both Shuttle Radar Topography Mission DEM (SRTM-DEM) and Copernicus DEM (COP-DEM) at 30 m spatial resolution. The study also examines how varying these parameters can lead to different modelling outcomes, underscoring the necessity of calibrating least-cost analysis to specific regional contexts. The road segments around Nichoria (Messenia), Ayios Ioannis Kazarma (Argolis), and in the Berbati Valley (Argolis), provide a historical canvas against which these methodological innovations are tested with the ultimate aim of exploring the capabilities of the Movecost package and how different combinations of DEM, function, parameter, and path points can effectively model the route through the existing road remains, highlighting the variability and context-specific nature of LCP modelling. The results suggest that the 'Wheeled-vehicle critical cost function' (WCS) was effective in modelling the roads through the extant remains based on start and endpoints suggested by previous research and posited by this paper. These results further suggest that Mycenaean roads likely served as key infrastructure links between major centres and ports or harbours, underscoring their role in facilitating regional trade and communication. However, this outcome represents one of several possible results, as the appropriateness of functions and the parameters tested depend on the specific landscape and archaeological context. This underscores the importance of careful parameter selection, providing insights into the economic and social landscapes of Mycenaean Greece, while also highlighting the potential of integrating spatial data with robust computational tools to enhance our understanding of ancient infrastructure.</em></p>
Raw data and R code for the stone artifact analysis in "Lithic miniaturization in South China since the terminal Pleistocene: a multivariate analysis of lithic reduction from Fodongdi, Fulin and Xiqiaoshan"
Open the record for dataset details and reuse information.
R vignette of Toothnroll: full data and R code
<p>R vignette of Toothnroll: full data and R code</p>
R code and data for running models in "Rapid Growth of the Swainson's Hawk Population in California since 2005"
<p>By 1979 Swainson's Hawks (<em>Buteo swainsoni)</em> had declined to as low as 375 breeding pairs throughout their summer range in California. Shortly thereafter the species was listed as threatened in the state. To evaluate the hawk's population trend since then, we analyzed data from 1,038 locations surveyed throughout California in either 2005, 2006, 2016, or 2018. We estimated a total statewide population of 18,810 breeding pairs (95CI: 11,353–37,228) in 2018, and found that alfalfa (<em>Medicago sativa</em>, lucerne) cultivation, agricultural crop diversity, and the occurrence of non-agricultural trees for nesting were positively associated with hawk density. We also concluded that California's Swainson's Hawk summering population grew rapidly between 2005 and 2018 at a rate of 13.9% per year (95CI: 7.8–19.2%). Despite strong evidence that the species has rebounded overall in California, Swainson's Hawks remain largely extirpated from Southern California where they were historically common. Further, we note that the increase in Swainson's Hawks has been coincident with expanded orchard and vineyard cultivation which is not considered suitable for nesting. Therefore, we recommend more frequent, improved surveys to monitor the stability of the species' potential recovery and to better understand the causes. Our results are consistent with increasing raptor populations in North America and Europe that contrast with overall global declines, especially in the tropics.</p>
Data from: Mridha S and Kümmerli R (2022) Enforced specialization fosters mutual cheating and not division of labour in the bacterium Pseudomonas aeruginosa
<p><span>A common way for bacteria to cooperate is via the secretion of beneficial public goods (proteases, siderophores, biosurfactants) that can be shared among individuals in a group. Bacteria often simultaneously deploy multiple public goods with complementary functions. This raises the question whether natural selection could favour division of labour where subpopulations or species specialise in the production of a single public good, whilst sharing the complementary goods at the group level. Here we use an experimental system, where we mix engineered specialists of the bacterium <em>Pseudomonas aeruginosa</em> that can each only produce one of the two siderophores, pyochelin or pyoverdine, and explore the conditions under which specialization can lead to division of labour. When growing pyochelin and pyoverdine specialists at different mixing ratios under different levels of iron limitation, we found that specialists could only successfully complement each other in environments with moderate iron limitation and grow as good as the generalist wildtype but not better. Under more stringent iron limitation, the dynamics in specialist communities was characterized by mutual cheating and with higher proportions of pyochelin producers greatly compromising group productivity. Nonetheless, specialist communities remained stable through negative frequency-dependent selection. Our work shows that specialization in a bacterial community can be spurred by cheating and does not necessarily result in beneficial division of labour. We propose that natural selection might favour fine-tuned regulatory mechanisms in generalists over division of labour because the former enables generalists to remain flexible and adequately adjust public good investments in fluctuating environments. </span></p>
ScienceDex guides
Understand access before you commit
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.