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Рис. 5. Коррелограммы покаЗателей обилиЯ наЗемных моллюсков раЗных воЗрастных групп (1 – ювенильные; 2 – вЗрослые; 3 – все вместе): A – H. lucorum, участок № 1, 2010 г.; B – Ch. tridens, участок № 2, 2011 г.; C – Ch. tridens, участок № 4, 2012 г.); D – Ch. tridens, участок № 5, 2012 г. (достоверные оценки индекса Морана отмечены Залитыми Значками). Fig. 5. Spatial correlogram of the land snail different age groups abundance (1 – juvenile; 2 – adult; 3 – total): A – H. lucorum, site 1, 2010; B – Ch. tridens, site 2, 2011; C – Ch. tridens, site 4, 2012; D – Ch. tridens, site 5, 2012 (Moran index confidence value presented by filled signs). in Analysis of the spatial distribution patterns of the land snail populations: a geostatistic method approach
Рис. 5. Коррелограммы покаЗателей обилиЯ наЗемных моллюсков раЗных воЗрастных групп (1 – ювенильные; 2 – вЗрослые; 3 – все вместе): A – H. lucorum, участок № 1, 2010 г.; B – Ch. tridens, участок № 2, 2011 г.; C – Ch. tridens, участок № 4, 2012 г.); D – Ch. tridens, участок № 5, 2012 г. (достоверные оценки индекса Морана отмечены Залитыми Значками). Fig. 5. Spatial correlogram of the land snail different age groups abundance (1 – juvenile; 2 – adult; 3 – total): A – H. lucorum, site 1, 2010; B – Ch. tridens, site 2, 2011; C – Ch. tridens, site 4, 2012; D – Ch. tridens, site 5, 2012 (Moran index confidence value presented by filled signs).
Рис. 4. Коррелограммы покаЗателей обилиЯ наЗемного моллюска M. cartusiana раЗных воЗрастных групп (1 – ювенильные; 2 – вЗрослые; 3 – все вместе): A – участок № 1, 2010 г.; B – участок № 2, 2011 г.; C – участок № 4, 2012 г.); D – участок № 5, 2012 г. (достоверные оценки индекса Морана отмечены Залитыми Значками). Fig. 4. Spatial correlogram of land snail M. cartusiana age groups abundance (1 – juvenile; 2 – adult; 3 – total): A – site 1, 2010; B – site 2, 2011; C – site 4, 2012; D – site 5, 2012 (Moran index confidence value presented by filled sings). in Analysis of the spatial distribution patterns of the land snail populations: a geostatistic method approach
Рис. 4. Коррелограммы покаЗателей обилиЯ наЗемного моллюска M. cartusiana раЗных воЗрастных групп (1 – ювенильные; 2 – вЗрослые; 3 – все вместе): A – участок № 1, 2010 г.; B – участок № 2, 2011 г.; C – участок № 4, 2012 г.); D – участок № 5, 2012 г. (достоверные оценки индекса Морана отмечены Залитыми Значками). Fig. 4. Spatial correlogram of land snail M. cartusiana age groups abundance (1 – juvenile; 2 – adult; 3 – total): A – site 1, 2010; B – site 2, 2011; C – site 4, 2012; D – site 5, 2012 (Moran index confidence value presented by filled sings).
Рис. 3. Коррелограммы покаЗателей обилиЯ наЗемного моллюска B. cylindrica раЗных воЗрастных групп (1 – ювенильные; 2 – вЗрослые; 3 – все вместе): A – участок № 1, 2010 г.; B – участок № 2, 2011 г.; C – участок № 4, 2012 г.); D – участок №5, 2012 г. (достоверные оценки индекса Морана отмечены Залитыми Значками). Fig. 3. Spatial correlogram of the land snail B. cylindrica age groups abundance (1 – juvenile; 2 – adult; 3 – total): A – site 1, 2010; B – site 2, 2011; C – site 4, 2012; D – site 5, 2012 (Moran index confidence value presented by filled signs). in Analysis of the spatial distribution patterns of the land snail populations: a geostatistic method approach
Рис. 3. Коррелограммы покаЗателей обилиЯ наЗемного моллюска B. cylindrica раЗных воЗрастных групп (1 – ювенильные; 2 – вЗрослые; 3 – все вместе): A – участок № 1, 2010 г.; B – участок № 2, 2011 г.; C – участок № 4, 2012 г.); D – участок №5, 2012 г. (достоверные оценки индекса Морана отмечены Залитыми Значками). Fig. 3. Spatial correlogram of the land snail B. cylindrica age groups abundance (1 – juvenile; 2 – adult; 3 – total): A – site 1, 2010; B – site 2, 2011; C – site 4, 2012; D – site 5, 2012 (Moran index confidence value presented by filled signs).
Рис. 7. 3D–диаграммы пространственного распределениЯ обилиЯ моллюска B. cylindrica (А), фитомассы (В), проективного покрытиЯ (С), твердости грунта на глубине 5–10 см (D) на участке № 1 в 2010 г. (единицы иЗмерениЯ осей Х и Y даны в метрах). Fig. 7. 3D–diagrams of the abundance spatial distribution of the snail B. cylindrica (A), phytomass (B), plants projective cover (C), 0–10 cm layer soil penetration resistance (D) at the site 1 in 2010. (axes X and Y presented in meters). in Analysis of the spatial distribution patterns of the land snail populations: a geostatistic method approach
Рис. 7. 3D–диаграммы пространственного распределениЯ обилиЯ моллюска B. cylindrica (А), фитомассы (В), проективного покрытиЯ (С), твердости грунта на глубине 5–10 см (D) на участке № 1 в 2010 г. (единицы иЗмерениЯ осей Х и Y даны в метрах). Fig. 7. 3D–diagrams of the abundance spatial distribution of the snail B. cylindrica (A), phytomass (B), plants projective cover (C), 0–10 cm layer soil penetration resistance (D) at the site 1 in 2010. (axes X and Y presented in meters).
Рис. 2. Диаграммы распределениЯ обилиЯ наЗемного моллюска M. cartusiana: A – участок № 1, 2010 г.; B – участок № 2, 2011 г.; C – участок № 4, 2012 г.; D – участок № 5, 2012 г. (единицы иЗмерениЯ осей Х и Y даны в метрах; численность особей пропорциональна раЗмерам Шариков). Fig. 2. Diagram of the abundance distribution of the land snail M. cartusiana: A – site 1, 2010; B – site 2, 2011; C – site 4, 2012; D – site 5, 2012 (Х and Y axes presented in meters; abundance proportional to sphere sizes). in Analysis of the spatial distribution patterns of the land snail populations: a geostatistic method approach
Рис. 2. Диаграммы распределениЯ обилиЯ наЗемного моллюска M. cartusiana: A – участок № 1, 2010 г.; B – участок № 2, 2011 г.; C – участок № 4, 2012 г.; D – участок № 5, 2012 г. (единицы иЗмерениЯ осей Х и Y даны в метрах; численность особей пропорциональна раЗмерам Шариков). Fig. 2. Diagram of the abundance distribution of the land snail M. cartusiana: A – site 1, 2010; B – site 2, 2011; C – site 4, 2012; D – site 5, 2012 (Х and Y axes presented in meters; abundance proportional to sphere sizes).
Fig. 1 in Analysis of the spatial distribution patterns of the land snail populations: a geostatistic method approach
Fig. 1. Diagram of the abundance distribution of the land snail B. cylindrica: A – site 1, 2010; B – site 2, 2011; C – site 4, 2012; D – site 5, 2012 (Х and Y axes presented in meters; abundance proportional to sphere sizes).
Рис. 1. Диаграммы распределениЯ обилиЯ наЗемного моллюска B. cylindrica: A – участок № 1, 2010 г.; B – участок № 2, 2011 г.; C – участок № 4, 2012 г.; D – участок № 5, 2012 г. (единицы иЗмерениЯ осей Х и Y даны в метрах; численность особей пропорциональна раЗмерам Шариков). in Analysis of the spatial distribution patterns of the land snail populations: a geostatistic method approach
Рис. 1. Диаграммы распределениЯ обилиЯ наЗемного моллюска B. cylindrica: A – участок № 1, 2010 г.; B – участок № 2, 2011 г.; C – участок № 4, 2012 г.; D – участок № 5, 2012 г. (единицы иЗмерениЯ осей Х и Y даны в метрах; численность особей пропорциональна раЗмерам Шариков).
Spatial analysis of the potential impact of contaminated areas on wells and aquifers in the Upper Tietê Basin, São Paulo, Brazil
<p><span>Upper Tietê stands out as the basin with the highest concentration of contaminated areas in São Paulo, Brazil, thereby exerting a pronounced impact on the quality of groundwater and directly affecting the resident population. Recognizing the importance of developing indicators for effective aquifer management, this study proposed to identify and assess the degree of risk, vulnerability, and contamination of aquifers and wells in the Upper Tietê Basin. Were applied the Aquifer Vulnerability Index method to evaluate the aquifer vulnerability in the region; the delimitation of safety perimeters and identification of wells at risk; and the integrated risk index, unifying information on social and aquifer vulnerabilities, hazards and exposure. The results reveal that the aquifers have a high vulnerability, mainly due to the thickness of their unsaturated layer. Furthermore, there were 7,958 wells at risk around the basin (77.15%), and the most vulnerable municipalities are on the outskirts of the basin. This study provides important insights, mainly due to the holistic approach, serving as a basis for identifying the regions with the highest risks, which can be prevented and mitigated with appropriate actions.</span></p>
Fig. 2 in Multi-Criteria Decision Analysis as a tool to extract fishing footprints: application to small scale fisheries and implications for management in the context of the Maritime Spatial Planning Directive
Fig. 2: Flowchart of steps and methods followed (AHP: Analytic Hierarchy Process, FM: Fuzzy Membership).
Fig. 7 in Multi-Criteria Decision Analysis as a tool to extract fishing footprints: application to small scale fisheries and implications for management in the context of the Maritime Spatial Planning Directive
Fig. 7: Spatial representation of the Fishing pressure index from the small scale coastal fishery (FPc).
Figure 5 in Analysis of the spatial organization of Vallonia pulchella (Muller, 1774) ecological niche in Technosols (Nikopol manganese ore basin, Ukraine)
Figure 5. Correlation between the environment variables and the axes selected as a result of FANTER analysis. A – marginality axes 1 and 2; B - specialization axes 44 and 45. Type_1 - type_6 - the proportion of physiognomic types of vegetation cover; temp_05 - top soil temperature (3-5 cm) May 3, 2012; temp_06 - temperature of the top layer of soil (3-5 cm) June 20, 2012; Tm - thermoclimate; Kn - continentality; Om - ombroclimate; Kr - cryoclimate; Hd - humidity; Tr - salt regime; Nt - nitrogen nutrition; Rc - acidity; Lc - lighting; St - stepants; Pr - pratants; Humus – humus comtant; EC – soil electrical conductivity, imp_05 - imp_50 - soil mechanical impedance at a depth of 5, ..., 50 cm, Agr_10 - Agr_025 - aggregate fractions of size> 10, ..., <0.25 mm, g_Vlag - hygroscopic humidity,%; Compact – soil shrinkage, in %.
Figure 8 in Analysis of the spatial organization of Vallonia pulchella (Muller, 1774) ecological niche in Technosols (Nikopol manganese ore basin, Ukraine)
Figure 8. Spatial distribution of the habitat preference index (HSI) for Vallonia pulchella within the experimental site on red-brown clays based on ENFA (top) and MADIFA (bottom) procedures. The arrow indicates the zones of greatest difference.
Figure 4 in Analysis of the spatial organization of Vallonia pulchella (Muller, 1774) ecological niche in Technosols (Nikopol manganese ore basin, Ukraine)
Figure 4. An histogram of the available resource units. Resource allocation (black bars) and an histogram of the used resource units distribution of resource use (gray bars) of Vallonia pulchella. Type_1 - type_6 - the proportion of physiognomic types of vegetation cover; temp_05 - top soil temperature (3-5 cm) May 3, 2012; temp_06 - temperature of the top layer of soil (3-5 cm) June 20, 2012; Tm - thermoclimate; Kn - continentality; Om - ombroclimate; Kr - cryoclimate; Hd - humidity; Tr - salt regime; Nt - nitrogen nutrition; Rc - acidity; Lc - lighting; St - stepants; Pr - pratants; Humus – humus comtant; EC – soil electrical conductivity, imp_05 - imp_50 - soil mechanical impedance at a depth of 5, ..., 50 cm, Agr_10 - Agr_025 - aggregate fractions of size> 10, ..., <0.25 mm, g_Vlag - hygroscopic humidity,%; Compact – soil shrinkage, in %.
Figure 2 in Analysis of the spatial organization of Vallonia pulchella (Muller, 1774) ecological niche in Technosols (Nikopol manganese ore basin, Ukraine)
Figure 2. Soil surface and physiognomic characteristics of the vegetation cover. 1 – type_1 (Bromus sguarrosus L.); 2 – type_2 (Seseli tortuosum L.); 3 – type_3 (Lactuca tatarica (L.) C.A. Mey.); 4 – type_4 (Medicago sativa L.); 5 – type_5 (dead plant residue); 6 – type_6 (open soil cover).
Figure 1 in Analysis of the spatial organization of Vallonia pulchella (Muller, 1774) ecological niche in Technosols (Nikopol manganese ore basin, Ukraine)
Figure 1. Research Centre of the Dnipro Agrarian and Economic University in Pokrov (Ukraine). A – satellite image of the study area (1 – reclaimed land; 2 – mining quarry); B – technosoils profile; C – quarry panorama view.
A Large-Scale Sensitivity Analysis on Latent Embeddings and Dimensionality Reductions for Text Spatializations
<p>Result Files for the Paper "A Large-Scale Sensitivity Analysis on Latent Embeddings and Dimensionality Reductions for Text Spatializations" to be published at IEEE Vis 2024</p>
Spatial partial identity model for spatial capture-recapture analysis of large carnivores in Kasungu National Park, Malawi
<p>Overview:</p> <p>Decline in global carnivore populations has led to increased demand for assessment of carnivore densities in understudied habitats. Spatial capture-recapture is used increasingly to estimate species densities, where individuals are often identified from their unique pelage patterns. However, uncertainty in bilateral individual identification can lead to the omission of capture data and reduce the precision of results. The recent development of the two-flank spatial partial identity model (SPIM), offers a cost-effective approach which can reduce uncertainty in individual identity assignment and provide robust density estimates. We conducted camera trap surveys annually between 2016 and 2018 in Kasungu National Park, Malawi, a primary miombo woodland and a habitat lacking baseline data on carnivore densities. We used SPIM to estimate density for leopard (<em>Panthera pardus</em>) and spotted hyaena (<em>Crocuta crocuta</em>), and report on the status of other large carnivores.</p> <p>Usage notes:</p> <p>These data are to estimate density for leopard and spotted hyaena in KNP, Malawi. They are provided as an example for using the spatial partial identity model for spatial capture-recapture analysis in populations where individuals are partially identified.</p> <p>Methods:</p> <p>Individual leopards and spotted hyaena were identified from photographs using their unique pelage patterns (Henschel & Ray, 2003). A database was maintained of identified individuals, with partial (single flank) or complete (two flank) identities, to build capture histories for SCR analysis. We identified individuals from left flank captures for both species, due to higher numbers of identified left flank individuals recorded during preliminary surveys. Complete identities were added where flanks were certain to come from the same individual (from baited stations outside of survey time, live captures, dual camera trap stations and multiple passes of a single camera trap). Leopards were sexed by visual determination of external genitalia, presence of the dewlap, frontal bossing and overall body size (Henschel & Ray, 2003; Devens <em>et al</em>. 2018). Sexing was not possible for spotted hyaena due to difficulties in determining sex from external genitalia and body size. Capture histories were developed for spatial captures and trap effort, with each day (24 hours) treated as a separate sampling occasion (Goldberg <em>et al</em>. 2015). Trap effort was measured through a binary matrix of active-inactive days, to improve estimates of detection probability, and included the spatial location of each camera location.</p> <p>Density was modelled using the package <em>SPIM </em>(Augustine, 2018) in R v.3.5.2<em> </em>(R Development Core Team, 2018) to resolve the complete identity of individuals from single-flank samples probabilistically (see Augustine <em>et al</em>. 2018 for complete description of spatial partial identity model), and a Bernoulli observation model fitted, whereby an individual may be captured in each trap only once during each sampling occasion (Royle <em>et al</em>. 2013; Augustine <em>et al</em>. 2018). For Markov Chain Monte Carlo simulations, a single chain of 50,000 iterations per single session analysis was undertaken, with a burn-in of 500 iterations and data augmentation of 100-130 individuals for leopard and 125-250 for spotted hyaena. Analysis was conducted with an increasing buffer width from 10,000 to 25,000 metres (leopard) and 10,000 to 40,000 metres (spotted hyaena), using 5,000 metre increments, until density estimates stabilised (Chase-Grey <em>et al</em>. 2013; Devens <em>et al</em>. 2018).</p>
Figures 5a–f in Trapping Records of Fruit Fly Pest Species (Diptera: Tephritidae) on Oahu (Hawaiian Islands): Analysis of Spatial Population Trends
Figures 5a–f. Mean (± S.E.) captures in different habitats for B. cucurbitae in cuelure and torula yeast (a, b), B. dorsalis in methyl eugenol and torula yeast (c, d) and C. capitata in trimedlure and torula yeast (e, f) traps. Units are flies per trap per day in male lure and per week in torula yeast traps.
Fig. 1 in Stable isotope analysis spills the beans about spatial variance in trophic structure in a fish host - parasite system from the Vaal River System, South Africa
Fig. 1. Map of the Vaal River showing the position of sampling sites (I: below Grootdraai Dam; II: Vaal Dam; III: below Vaal River Barrage; IV: Bloemhof Dam; V: below Vaalharts Weir; VI: Douglas Weir) along the Vaal River. The block (B) indicates the position of the Vaal River within South Africa and insert A indicates the position of South Africa shaded on the African continent.
Spatial Tumor-Immune Analysis: Insights from Pathology Slides and Breast Cancer Survival
<p>Cancer is the second leading cause of death in the US. Among the various forms of cancer, breast cancer and lung cancer are particularly significant due to their prevalence and impact. Breast cancer in particular contributing to around 30\% of all new female cases each year, while also having some of the highest mortality rates. Scientists and doctors rely on pathology slides to aid in the discovery of a cure, diagnose patients, and provide treatment. These slides play a crucial role in examining samples and identifying any abnormalities. The primary goal of this project was to analyze pathology slides from 873 cancer patients in The Cancer Genome Atlas Breast Invasive Carcinoma (TCGA-BRCA). We developed STAIN (Spatial Tumor and Immune Analysis for Novel insights) with the hypothesize that quantitative analysis of cell type specific clusters in the spatial context can lead to novel insights on patient survival. First, we identified tumor and immune cells using a HD-Yolo algorithm. Then we identify tumor clusters and immune cell clusters. Next, descriptive statistics such as Jaccard distance, Hausdorff distance, Wasserstein distance, tumor density, and immune cell density were derived and correlated with the patients survival while adjusting for clinical attributes such as patient age and tumor stage using Cox proportional Hazard models. The results discover spatial attributes and known clinical risk features associated with survival. </p>
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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.