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Dataset results
317 results for “R code”
Data & R code for: Paquette & Hargreaves 'Biotic interactions are more often important at species' warm vs. cool range edges'
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Data and R codes: species range-size variation in oaks
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Data and R code from: Resource quantity and quality co-limit consumer production in forest streams
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Data and R code from: Spatiotemporal risk factors predict landscape-scale survivorship for a northern ungulate
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R codes from: Breakdown of the growth–mortality trade-off along a soil phosphorus gradient in diverse neotropical forest
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Data and R computer code from: Summer elk calf survival in a partially migratory population
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Dataset and R code: Genetic diversity of lion populations in Kenya: evaluating past management practices and recommendations for future conservation actions by Chege M et.al
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Wayqecha Amazon cloud curtain ecosystem experiment: Climate data and R processing code
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Onthophagus babirussa sexual size dimporphism and male sexual trait files and R codes
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Supplementary datasets, data analysis code, and R tutorials for: Phylogenetic analysis of adaptation in comparative physiology and biomechanics: overview and a case study of thermal physiology in treefrogs
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Occurrences and R code for: Dynamic distribution modeling of the Swamp Tigertail dragonfly Synthemis eustalacta (Odonata: Anisoptera: Synthemistidae) over a 20-year bushfire regime
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Armed to the teeth: Supplementary material, R code, Rdata, mesh, landmarks
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R_JAGS code for estimation and analysis of species-area-relationship (SAR) parameters from NEON (National Ecological Observatory Network) data on plant surveys
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Data and R code for “Tree regeneration response to a shifting soil nutrient economy depends on mycorrhizal association and age”, Forest Ecology and Management, 2022
Atmospheric nitrogen (N) deposition has led to an increase in N cycling and N availability. This increase in inorganic N is likely to impact forest ecosystems, although the responses remain uncertain. Most tree species are associated with one of two mycorrhiza types – arbuscular mycorrhizae (AM) or ectomycorrhiza (ECM). Due to functional differences in their ability to access soil nutrients, we might expect that increased N cycling and availability of inorganic N would benefit AM associated species, with negative or neutral impact for ECM associated species. This study addresses how the abundance of the regeneration layer responds to those shifting soil conditions, based on their mycorrhizal association. We used a long-term experiment located in a temperate deciduous forest, where the native acidic soils are low in nutrients. Soil treatments began in 2009, by adding lime and/or phosphate to raise pH and increase the availability of N and P. All trees ≥ 6.0 cm in 2010 were tagged and have been monitored with annual censuses. To quantity the density of the regeneration layer, seedlings and saplings were recorded in the control and limed plots in 2019. Trees that had recruited into the canopy (DBH ≥ 6.0 cm) were measured in 2020 in all treatment plots. Seedlings older than one year responded to the treatments as predicted, as AM seedlings increased by 42% in the lime treatment (1.53 ± 0.38 individuals per m2 in control, to 2.17 ± 0.56 in lime) and ECM seedlings decreased by 49% in response to liming (0.61 ± 0.14 individuals per m2 in control, to 0.31 ± 0.04 in lime). AM saplings also responded positively to liming, increasing 254% from control to lime (from 0.013 ± 0.003 to 0.046 ± 0.018 individuals per m2), while ECM sapling abundance was neutral (0.063 ± 0.015 individuals per m2 in control, and 0.054 ± 0.009 in lime). The highest number of ECM recruits was found in the control plots (34.4%), followed by phosphate (25.8%), lime + phosphate (21.5%), then lime (18.3%).
Data and R code for “Tree growth response to shifting soil nutrient economy depends on mycorrhizal associations”, New Phytologist, 2019.
The mycorrhizal-associated nutrient economy hypothesis proposes a strong connection between plant and fungal traits and the dominant form of soil nutrients. If true, then shifting from an organic to an inorganic nutrient economy should benefit arbuscular mycorrhizal (AM) trees because they are more suited to acquiring inorganic forms of nutrients and have limited decomposing capabilities when compared to ectomycorrhizal (ECM) trees. An inorganic nutrient economy was experimentally promoted by applying inorganic phosphorus (P) fertilizer and/or elevating soil pH with lime in three Allegheny Plateau mixed mesophytic forests. Trees were measured over seven growing seasons to determine how growth responded to the treatments based on mycorrhizal association. AM-associated trees showed increased growth in response to increased inorganic nutrients, but ECM tree growth was suppressed when compared to the control. We also observed that understory and mid-story trees responded to the treatments, but large overstory trees showed no significant growth response. Results support the hypothesis that AM trees respond positively to an inorganic nutrient economy. While raising pH in acidic soils can be detrimental to ECM tree growth, the exact mechanism for this response is unclear
Dataset and documented R code for "Nouns and verbs in the speech signal"
<p>The files available constitute supplementary material to the following article:</p> <p>Lohmann, Arne. Nouns and verbs in the speech signal: Are there phonetic correlates of grammatical category? <em>Linguistics</em> - <em>An Interdisciplinary Journal of the Language Sciences</em>.</p> <p>The article is to be published online in 2020, and in 2021 in the print version of the journal.</p>
Emotion recognition HD - Data and R code
<p>Data and R code - <strong>Recognition of emotion from subtle and non-stereotypical dynamic facial expressions in Huntington's diseaseRecognition of emotion from subtle and non-stereotypical dynamic facial expressions in Huntington's disease</strong></p>
Yeast 1-hybrid screens for upstream regulators of A. thaliana AGO1, AGO7, and AGO10: raw data and R code
<p>These files document a yeast 1-hybrid experiments and associated analyses described in a paper by Hoyer et al. (2019): <a href="https://doi.org/10.1002/pld3.102">https://doi.org/10.1002/pld3.102</a></p> <p>This release corresponds to the fourth version of the Zenodo record. None of the code or data files changed from record 1472704 (the version linked in the paper); I simply added a link to the <a href="https://doi.org/10.1002/pld3.102">Plant Direct paper</a> to the ReadMe file.</p>
Spectral data and R modeling code from: Polarized light sensitivity in Pieris rapae is dependent on both color and intensity
<p>This dataset provides supplementary spectral data and the R code underlying the spectral sensitivy moding of female <em>Pieris rapae</em> photoreceptors used in the manuscript "Polarized light sensitivity in <em>Pieris rapae</em> is dependent on both color and intensity".</p>
Evidence for an extreme founding effect in a highly successful invasive species: data and R code
<p>The adaptive potential of invasive species is thought to decrease during founding events due to reduced genetic diversity, limiting the new population's ability to colonize novel habitats. Barbary ground squirrels (<i>Atlantoxerus getulus</i>) were purportedly introduced as a single breeding pair to the island of Fuerteventura but have expanded to over a million individuals spread across the island in just over 50 years. We estimated the number of founders and measured the level of genetic diversity in this population using the mitochondrial displacement loop and microsatellite markers. Island samples (<i>n</i> = 19) showed no variation in the d-loop, suggesting a single founding female, while Moroccan samples (<i>n</i> = 6) each had unique mitochondrial haplotypes. The microsatellite data of the island population (<i>n</i> = 256 individuals) revealed a small effective population size, low levels of heterozygosity, and high levels of inbreeding, supporting a founding population size of two to three individuals. Our results suggest that <i>A. getulus</i> has undergone an intense genetic bottleneck during their colonization of the island. They are one of the few species where introduction effort does not explain invasion success, although further investigation may explain how they have avoided the worst expected effects following an extreme genetic bottleneck.</p>
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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.