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76 results for “Tree mortality”
Long-term growth, mortality and regeneration of trees in permanent vegetation plots in the Pacific Northwest, 1910 to present
A network of more than 130 permanent vegetation plots provides long-term information on patterns and rates of forest succession in most of the major forest zones of the Pacific Northwest. The plot network extends from the coast to the Cascades in western Oregon and Washington and east to ponderosa pine forests in the Oregon Cascades. Most of the permanent plots were established during two intervals: from 1910 to 1948, and from 1970 to 1989. The earlier plots were established by U.S. Forest Service researchers to quantify timber growth in young stands of important commercial species and to help answer other applied forestry questions. The more recent period of plot establishment began under the Coniferous Forest Biome program of the International Biological Program during the 1970s, and continued under the Long-term Ecological Research program. A broader set of objectives motivated plot establishment since 1970, especially quantification of composition, structure, and population and ecosystem dynamics of natural forests. Plots have one of three spatial arrangements: (1) contiguous rectangles subjectively placed within an area of homogeneous forest; (2) circular plots subjectively placed within an area of homogeneous forest; and (3) circular plots systematically located on long transects to sample an entire watershed, ridge, or reserve. Rectangular study areas are mostly 1.0 ha or 0.4 ha (1.0 ac) in size (slope-corrected). Circular plots are 0.1 ha (0.247 ac), not corrected for slope. The tree stratum is the focus of work in closed-forest study areas. All trees larger than a minimum diameter (5 cm for most areas) are permanently tagged. Plots are censused every 5 or 6 years. Attributes measured or assessed at each census include tree diameter, tree vigor, and the condition of the crown and stem. The same attributes are recorded for trees (ingrowth) that have exceeded the minimum diameter since the previous census. In many plots tree locations are surveyed to provide a
Tree Health Conditions (mortality, damage, disease, bark beetles) in Fuel Reduction Treatments Located Near Communities in Interior Alaska and the Cook Inlet Region of Alaska - Observations from July-August 2023
This dataset contains tree-, transect-, and site-level observations of forest stands at sites that received a fuel reduction treatment. Tree-level observations include species, diameter, living status, damage, disease, and bark beetle presence. Transect-level observations include level of coarse woody debris and bark beetle presence. Sites are categorized by region (recent/ongoing spruce beetle oubreak or endemic spruce beetle population levels) and treatment type (hand-thinned or mechanincally felled and masticated). These observations are from July-August 2023. Sites are located near communities in Interior Alaska and the Cook Inlet Region.
Data from paper: "Large-scale variations in the dynamics of Amazon forest canopy gaps from airborne lidar data and opportunities for tree mortality estimates"
<p>Data from the paper:</p> <p>Dalagnol, R. <em>et al.</em> Large-scale variations in the dynamics of Amazon forest canopy gaps from airborne lidar data and opportunities for tree mortality estimates. <em>Sci Rep</em> <strong>11, </strong>1388 (2021). https://doi.org/10.1038/s41598-020-80809-w</p> <p>Link: https://www.nature.com/articles/s41598-020-80809-w</p> <p> </p> <p>This repository contains:</p> <p>1) Data frame with data from static and dynamic gaps used in Figure 2 (Dalagnol_2020_Data_Multitemporal_gaps.csv). Each row is the aggregated measurement at 5-km resolution. The site component referes to the five site studied with multitemporal data. Site order from 1 to 5 is DUC, TAP, FN1, BON and TAL.</p> <p>2) Data frame with data from static gaps and environmental factors used in Table 1, Figure 3, 4, 5 (Dalagnol_2020_Data_Singledate_gaps_Modeling.csv). Each row is the aggregated measurement of one site observed by airborne lidar data.</p> <p>3) Raster file at 5-km resolution with dynamic gap fraction estimates presented in Figure 5 (dynamic_gap_fraction_amazon.tif).</p> <p> </p> <p>If you need anything else, please contact the corresponding author: Ricardo Dalagnol (ricds@hotmail.com).</p>
Tree mortality in Forest and Biodiversity 2: a tree diversity experiment to understand the consequences of multiple dimensions of diversity and composition for long-term ecosystem function and resilience
The Forest and Biodiversity (FAB2) experiment uses native tree species in varying levels of species richness, phylogenetic diversity, and functional diversity planted in 100 m2 and 400 m2 plots at 1 m spacing, appropriate for testing long-term ecosystem consequences. FAB2 was designed and established in conjunction with a prior experiment (FAB1) in which the same set of twelve species was planted in 16 m2 plots at 0.5 m spacing. Both are adjacent to the BioDIV prairie-grassland diversity experiment, enabling comparative investigations of diversity and ecosystem function relationships between experimental grasslands and forests at different planting densities and plot sizes. This data package examines mortality in the first six years of the experiment.
Tree mortality risks under climate change in Europe: assessment of silviculture practices and genetic conservation networks
<p>General context: Climate change can positively or negatively affect abiotic and biotic drivers of tree mortality. Process-based models integrating these climatic effects are only seldom used at species distribution scale.</p> <p>Objective: The main objective of this study was to investigate the multi-causal mortality risk of five major European forest tree species across their distribution range from an ecophysiological perspective, to quantify the impact of forest management practices on this risk and to identify threats on the genetic conservation network.</p> <p><br> Methods: We used the process-based ecophysiological model CASTANEA to simulate the mortality risk of \textit{Fagus sylvatica}, \textit{Quercus petraea}, \textit{Pinus sylvestris}, \textit{Pinus pinaster} and \textit{Picea abies} under current and future climate conditions, while considering local silviculture practices. The mortality risk was assessed by a composite risk index \textit{(CRIM)} integrating the risks of carbon starvation, hydraulic failure and frost damage. We took into account extreme climatic events with the \textit{CRIM$_{max}$}, computed as the maximum annual value of the \textit{CRIM}.</p> <p><br> Results: The physiological processes' contributions to \textit{CRIM} differed among species: it was mainly driven by hydraulic failure for \textit{P. sylvestris} and \textit{Q. petraea}, by frost damage for \textit{P. abies}, by carbon starvation for \textit{P. pinaster}, and by a combination of hydraulic failure and frost damage for \textit{F. sylvatica}. Under future climate, projection showed an increase of \textit{CRIM} for \textit{P. pinaster} but a decrease for \textit{P. abies}, \textit{Q. petraea} and \textit{F. sylvatica}, and little variation for \textit{P. sylvestris}. Under the harshest future climatic scenario, forest management decreased the mean \textit{CRIM} for \textit{P. sylvestris}, increased it for \textit{P. abies} and \textit{P. pinaster} and had no major impact for the two broadleaved species. By the year 2100, 38\% to 90\% of the conservation units are at extinction threat (\textit{CRIM$_{max}$}=1), depending on the species.</p> <p><br> Conclusions: Using a process-based ecophysiological model allowed us to disentangle the multiple drivers of tree mortality under current and future climate. Taking into account the positive effect of increased CO$_2$ on fertilization and water use efficiency, the average risks may increase or decrease in the future depending on species and sites. However, considering extreme climatic events, future projections are as pessimistic than those obtained with bioclimatic niche models.</p> <p> </p> <p>Abbreviation for column:</p> <p>X Longitude<br> Y Latitude<br> LAImax Leaf area index max reach<br> Nha Density per hectar<br> Vha Volume per hectar<br> NEE Net ecosystem exchange<br> NPP net primary production<br> Reco Respiration ecosystem<br> GPP Gross primary production<br> Etveg Evapotranspiration canopy<br> Etsol Evapotranspiration sol<br> TR tree transpiration<br> ETP evapotranspiration potentiel<br> BiomassOfReserves Biomass of reserve<br> rw ring width<br> dbh diameter at breast heast<br> height height<br> BBday Budburst date<br> rFD risk of frost<br> CRIM_max Maximum combined risk index of mortality reach<br> rNSC risk of carbon starvation<br> rPLC risk of embolism<br> rPLC_max Maximum risk of embolism reach<br> CRIM combined risk index of mortality<br> Climate Climatic model<br> rNSC_max maximum risk of carbon starvation reach<br> rFD_max Maximum risk of frost reach<br> Scenario_Sylvicol null means no silvulcture simulated<br> species species<br> Country Country<br> alt_watch altitude of climate simulated<br> grid_watch number of the pixel point of WATCH<br> grid_eurocordex number of the pixel point of Eurocordex<br> Pinus_sylvestris 0 abscence ; 1 presence<br> Fagus_sylvatica 0 abscence ; 1 presence<br> Quercus_petraea 0 abscence ; 1 presence<br> Picea_abies 0 abscence ; 1 presence<br> Pinus_pinaster 0 abscence ; 1 presence</p> <p> </p>
Tree mortality in an agricultural landscape of Southwestern Panama assessed using remote sensing and field data
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Recent tree mortality dampens semi-arid forest die-off during subsequent drought
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Growth-mortality relationships for southern Appalachian trees from the Coweeta Hydrologic Laboratory in 1995
Ecologists and foresters have long noted a link between tree growth rate and mortality, and recent work suggests that interspecific differences in low growth tolerance is a key force shaping forest structure. Little information is available, however, on the growth-mortality relationship for most species. We present three methods for estimating growth-mortality functions from readily obtainable field data. All use annual mortality rates and the recent growth rates of living and dead individuals. Annual mortality rates are estimated using both survival analysis and a Bayesian approach. Growth rates are obtained from increment cores. Growth-mortality functions are fitted using two parametric approaches and a non-parametric approach. The three methods are compared using bootstrapped confidence intervals and likelihood ratio tests. For two example species, Acer rubrum and Cornus florida, growth-mortality functions indicate a substantial difference in the two species abilities to withstand slow growth. Both survival analysis and Bayesian estimates of mortality rates lead to similar growth-mortality functions, with the Bayesian approach providing a means to overcome the absence of long-term census data. In fitting growth-mortality functions, the non-parametric approach reveals that inflexibility in parametric methods can lead to errors in estimating mortality risk at low growth. We thus suggest that non-parametric fits be used as a tool for assessing parametric models.
Data from: Disturbance detection in Landsat time series is influenced by tree mortality agent and severity, not by prior disturbance
<p><span>Landsat time series (LTS) and associated change detection algorithms are useful for monitoring the effects of global change on Earth's ecosystems. Because LTS algorithms can be easily applied across broad areas, they are commonly used to map changes in forest structure due to wildfire, insect attack, and other important drivers of tree mortality. But factors such as initial forest density, tree mortality agent, and disturbance severity (i.e., percent tree mortality) influence patterns of surface reflectance and may influence the accuracy of LTS algorithms. And while LTS algorithms are widely used in areas with a history of multiple disturbance events during the Landsat record, the effectiveness of LTS algorithms in these conditions is not well understood. We compared products from the LTS algorithm LandTrendr (<span>Landsat-based Detection of Trends in Disturbance and Recovery) with</span> a unique field dataset from a landscape heavily influenced by both wildfire and spruce beetles (<i>Dendroctonus rufipennis</i>) since c. 2000. We also compared LandTrendr to other common methods of mapping fire- and spruce beetle-affected areas. We found that LandTrendr more accurately detected wildfire than spruce beetle-induced tree mortality, and both mortality agents were more easily detected when they occurred at high severity. Surprisingly, prior spruce beetle outbreaks did not influence the detectability of subsequent wildfire. Compared to alternative disturbance mapping approaches, LandTrendr predicted a c. 40% lower area affected by wildfire or spruce beetle outbreaks. <span>Our findings indicate that disturbance type- and severity-specific differences in omission error may have broad implications for disturbance mapping efforts that utilize Landsat data. Gradual, low-severity disturbances (e.g., background tree mortality and non-stand replacing disturbance) are pervasive in forest ecosystems, yet they can be difficult to detect using automated LTS algorithms. Whenever possible, methods to account for these biases should be incorporated in LTS-based mapping efforts, including the use of multispectral ensembles and ancillary spatial data to refine predictions. However, our findings also indicate that LTS algorithms appear to be robust in areas with multiple disturbance events, which is important because these areas will increase as new acquisitions extend the length of the Landsat record. </span></span></p>
Data from: Negative density dependence in the mortality and growth of tropical tree seedlings is strong, and primarily caused by fungal pathogens
<ol> <li class="Body">Natural enemies have been implicated as agents of negative density dependence (NDD) in tropical forests, but their relative contributions to NDD, and thus to the maintenance of diversity, are largely unknown.</li> <li class="Body">We monitored the rates of survival and relative growth rates on seedlings for ten years in tropical moist forest in Manu National Park, Peru. We then experimentally manipulated the plots to exclude fungal pathogens, insects, small mammals, and large mammals for an additional 31 months to assess the influence of these natural enemies on density-dependent interactions among tropical seedlings.</li> <li class="Body">Fungal pathogens made the most important contribution to negative density dependence. The application of fungicide led to lower mortality rates, faster growth rates, and decreased species diversity. Other taxa of natural enemies had at most minor effects on seedling performance.</li> <li class="Body"> <i>Synthesis. </i>We conclude that fungal pathogens are the strongest contributors to the widely observed NDD that occurs among seedlings. Moreover, the presence of fungal pathogens augments the species diversity of seedlings, indicating their critical contribution to the maintenance of species coexistence and the structure of tropical tree communities.</li> </ol>
Data from: Three decades of annual growth, mortality, physical condition, and microsite for ten tropical rainforest tree species
In lowland tropical rainforest, hundreds of tree species typically occur within mesoscale landscapes (50-500 ha). There is no consensus ecological theory that accounts for the coexistence of so many species with similar morphologies and the same fundamental requirements of light, nutrients, water, and physical space. In part this is due to the limited understanding of post-establishment ecology for the vast majority of tropical tree species. Of even more concern is the lack of understanding of how these trees are responding to on-going atmospheric and climatic changes. Here we present long-term data on the post-establishment ecology of ten species of tropical rainforest trees that span a broad life-history spectrum. The study site was upland (non-swamp) old-growth tropical wet forest at the La Selva Biological Station (N.E. Costa Rica). Focal individuals from established seedlings to mature trees were assessed annually, with an emphasis on accuracy and long-term consistency of the observations. The annual time-step, rare for longterm studies in tropical rainforest, captures the typically abrupt changes in forest structure and light environments, the frequent instances of major physical damage, and the trees' responses to these events and to interannual and long-term climatic variation. With the completion of the study in 2016, the data for survivorship, growth, and microsite conditions span 4499 individuals and 34 years. The first ten years of these data were published as an Ecology/Ecological Archives data paper in 2000 (Clark and Clark 2000), with two subsequent update publications (Clark and Clark 2006, 2012). This final update adds the final six years of observations, digitized field comments, and histories of points of measurement on the trees. The metadata now include the scanned original field data-sheets for the entire study and a narrative detailing the annual qa/qc of the data. The data set is unique for its scope (years of continuous annual measurements, number of monitored individuals), the in-depth documentation, and the unrestricted data access. The data have been used to study life history patterns, tree ecology through ontogeny, and effects on tree performance from interannual and long-term climatic and atmospheric change. They have also contributed to numerous remote-sensing studies.
Climate‐driven tree growth and mortality in the Black Forest, Germany: Long‐term observations
<p>Episodic tree mortality can be caused by various reasons. This study describes climate‐driven tree mortality and tree growth in the Black Forest mountain range in Germany. It is based on a 68‐year consistent data series describing the annual mortality of all trees growing in a forest area of almost 250 thousand ha. The study excludes mortality caused by storm, snow and ice, and fire. The sequence of the remaining mortality, the so‐called "desiccated trees," is analyzed and compared with the sequence of the climatic water balance during the growing season and the annual radial growth of Norway spruce in the Black Forest. The annual radial growth series covers 121 years and the climatic water balance series 140 years. These unique time series enable a quantitative assessment of multidecadal drought and heat impacts on growth and mortality of forest trees on a regional spatial scale. Data compiled here suggest that the mortality of desiccated trees in the Black Forest during the last 68 years is driven by the climatic water balance. Decreasing climatic water balance coincided with an increase in tree mortality and growth decline. Consecutive hot and dry summers enhance mortality and growth decline as a consequence of drought legacies lasting several years. The sensitivity of tree growth and mortality to changes in the climatic water balance increases with the decreasing trend of the climatic water balance. The findings identify the climatic water balance as the main driver of mortality and growth variation during the 68‐year observation period on a landscape‐scale including a variety of different sites. They suggest that bark beetle population dynamics modify mortality rates. They as well provide evidence that the mortality during the last 140 years never was as high as in the most recent years.</p>
Data from: Positive effects of tree species diversity on productivity switch to negative after severe drought mortality in a temperate forest experiment
<p>Synthesis of a large body of evidence from field experiments suggests more diverse plant communities are both more productive as well as more resistant to the effects of climatic extremes like drought. However, this view is strongly based on data from grasslands due to limited empirical evidence from tree diversity experiments. Here we report on the relationship between tree diversity and productivity over ten years in a field experiment established in 2005 that was then affected by the 2018 megadrought in central Europe. Across a number of years, tree species diversity and productivity were significantly positively related, however, the slope switched to negative in the year of the drought. Net diversity effects increased through time, with complementarity making greater continuations to the net diversity effect than selection effects. Complementarity was clearly positive (95 % credible interval) in three and five species mixtures before the drought (2012-2016) but was found to decrease in the year of the drought. Selection effects were clearly positive in 2016, and remained positive in 2018, the drought year in two, three, and five species mixtures. Survival of the Norway spruce (<em>Picea abies</em>) plummeted during drought and a negative relationship between species diversity and spruce survival was found. Our findings suggest that tree diversity per se may not buffer communities against the impacts of extreme drought and that tree species composition and the drought tolerance of tree species (i.e., species identity) will be important determinants of community productivity as the prevalence of drought increases.</p>
Supplementary data to article "From single trees to country-wide maps: Modeling mortality rates in Germany based on the Crown Condition Survey"
<p>This repository provides regression models and annual prediction rasters for tree mortality in Germany. </p> <p><strong>Regression models:</strong><br>Logistic regression models which predict tree mortality for the species (beech = Fagus sylvatica, <br>oak = Quercus petraea and robur, pine = Pinus sylvestris, spruce = Picea abies) and species <br>groups (OB = other broadleaves, OC = other conifers) based on observations of dead trees in the<br>German Crown Condition Survey (Waldzustandserhebung) and a set of environmental predictor <br>variables. The predictors come from the domains of climate (clim), site conditions (site, i.e. <br>topography, soil, land cover, deposition), tree age (age) and some models contain pairwise <br>interaction terms between predictors (inter). All models were fit in R and are represented as <br>objects of the class glm and stored in files of the type rds.</p> <p><strong>Prediction rasters:</strong><br>Spatial predictions of the mortality rate across Germany for each tree species and species group <br>and for each year from 1998 to 2022. The rasters have a spatial resolution of 100 m. Missing values<br>mark areas where the species/group does not occur. The mortality values are given as integers <br>between 0 (no mortality) and 10000 (100% mortality). The coordinate reference system is Lambert <br>Azimuthal Equal Area (LAEA; EPSG:3035). The rasters are provided in the file format GeoTIFF (tif).</p> <p>A detailed description of the data sources and analyses can be found in the following article.</p> <p><strong>Citation:</strong><br><em>Knapp, N., Wellbrock, N., Bielefeldt, J., Dühnelt, P., Hentschel, R., Bolte, A., 2024. </em><br><em>From single trees to country-wide maps: Modeling mortality rates in Germany based on the Crown Condition Survey.</em></p> <p><strong>Contact:</strong><br>nikolai.knapp@thuenen.de</p> <p> </p> <p> </p>
Dead Again: Predictions of repeat tree die-off under hotter droughts confirm mortality thresholds for a dryland conifer species
<p>Tree die-off, driven by extreme drought and exacerbated by a warming climate, is occurring rapidly across every wooded continent - threatening carbon sinks and other ecosystem services provided by forests and woodlands. Forecasting the spatial patterns of tree die-off in response to drought is a priority for the management and conservation of forested ecosystems under projected future hotter and drier climates. Several drought-related metrics have recently been proposed to predict the mortality threshold (i.e., tipping point) for <i>Pinus edulis, </i>a model tree species in many studies of drought-induced tree die-off. To improve future capacity to forecast tree mortality, we used a severe drought in 2018 across the southwestern United States as a natural experiment. We compared the ability of published mortality thresholds derived from four drought metrics (the Forest Drought Severity Index, the Standardized Precipitation Evapotranspiration Index, and raw values of precipitation and vapor pressure deficit) to predict areas of <i>P. edulis </i>die-off following extreme drought. Using aerial detection surveys of tree mortality in combination with gridded climate data, we calculated the agreement between these four proposed thresholds and the presence and absence of regional-scale tree die-off<i>.</i> Overall, such thresholds tended to over predict the spatial extent of tree die-off across the landscape, yet some retain moderate skill in discriminating between areas that experienced and did not experience tree die-off. Area under the curve (AUC) of these thresholds ranged from 0.51 to 0.71, sensitivity (true-positive rate) ranged from 0.54 to 0.86, and specificity (true-negative rates) ranged from 0.16 to 0.73. We highlight that empirically derived climate thresholds may be a useful forecasting tool to identify vulnerable areas to drought induced die-off, allowing for targeted responses to future droughts and improved management of at-risk areas.</p>
Tropical tree species differ in damage and mortality from lightning
<p>Lightning is an important agent of mortality for large tropical trees with implications for tree demography and forest carbon budgets. We evaluated interspecific differences in susceptibility to lightning damage using a unique dataset of systematically located lightning strikes on Barro Colorado Island, Panama. We measured differences in mortality among trees damaged by lightning and related those to damage frequency and tree functional traits. Eighteen of 30 focal species had lightning mortality rates that deviated from null expectations. Several species showed little damage and 3 species had no mortality from lightning, whereas palms were especially likely to die from strikes. Species that were most likely to be struck also showed the highest survival. Interspecific differences in tree tolerance to lightning suggest that lightning-caused mortality shapes compositional dynamics over time and space. Shifts in lightning frequency due to climatic change are likely to alter species composition and carbon cycling in tropical forests.</p>
Data from: Drought and heat-induced mortality of conifer trees is explained by leaf and growth legacies
<p>An increased frequency and severity of droughts and heatwaves have resulted in increased tree mortality and forest dieback across the world but underlying mechanisms are poorly understood. We used a common garden experiment with 20 conifer tree species to quantify mortality after three consecutive hot, dry summers and tested whether mortality could be explained by putative underlying mechanisms, such as stem hydraulics and legacies affected by leaf lifespan and stem growth responses to previous droughts. Mortality varied from 0-79% across species and was, surprisingly, not affected by hydraulic traits. Mortality increased with the species' leaf lifespan, probably because leaf damage caused crown dieback and contributed to carbon depletion and sensitivity to bark beetle damage. Mortality also increased with lower growth resilience, which may exacerbate the contribution of carbon depletion and bark beetle sensitivity to tree mortality. Our study highlights how ecological legacies at different time scales can explain tree mortality in response to hot, dry periods and climate change.</p>
Decomposition of bark beetle-attacked trees after mortality varies across forests
<p>Data are from a 2 year experiment examining differences in decomposition processes between bark beetle-attacked trees and trees not attacked by bark beetles in three sites spanning a broad geographic area. Specifically, in Honduras, and Mississippi and Arizona, USA, we felled one recently bark beetle-attacked and one apparently healthy conspecific tree at each site that was cut into 120 experimental logs. Logs of each tree (attacked or unattacked) were assigned one of three metal mesh covering treatments: 1) fully covered to exclude all macroinvertebrates, 2) covered from above to exclude secondary bark beetle colonization, 3) no cover to allow all detrital food web organisms. Half of all logs at each site was collected after 1 and 2 years and the density loss, insect visual damage rating, and abundance of termites, ants, and beetles was measured.</p>
Future drought-induced tree mortality risk in Amazon rainforest
<p>ORCHIDEE-CAN-NHA simulation outputs of aboveground biomass carbon gain and carbon loss, forced by four climate models from ISIMIP2b program</p>
Model outputs and species-level data for "Functional traits and climate drive interspecific differences in disturbance-induced tree mortality"
<p>This repository is divided in three sub-directories: </p> <ul> <li><em><strong>sensitivity </strong></em>contains the posterior of each parameter estimated by the bayesian mortality model in a rdata file. This file was generated by the script https://github.com/jbarrere3/SalvageModel/tree/withFinland</li> <li><em><strong>climate </strong></em>contains for each tree species the climatic variables (mean annual temperature, minimum annual temperature and annual precipitation) extracted from CHELSA and the disturbance-related climatic indices (Fire Weather Index, Snow Water Equivalent and Gust Wind Speed)</li> <li><em><strong>traits </strong></em>contains the traits calculated directly with NFI data (bark thickness, height to dbh ratio, maximum growth), and a text file with the Species and Trait ID to request to TRY database. </li> </ul> <p>The content of this repository can be used to reproduce the analyses of the paper, with the script stored in in https://github.com/jbarrere3/DisturbancePaper</p> <p><strong>Edit (19/09/2023):</strong> A minor coding error was found in the pre-formatted data of the paper, which did not affect the main results but led to minor change in the value of the posterior estimates. An updated version of the posterior estimates of this dataset was made available at https://zenodo.org/record/8358921. </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.