Dataset Information

Hydrologic landscape regionalisation using deductive classification and random forests.

ABSTRACT: Landscape classification and hydrological regionalisation studies are being increasingly used in ecohydrology to aid in the management and research of aquatic resources. We present a methodology for classifying hydrologic landscapes based on spatial environmental variables by employing non-parametric statistics and hybrid image classification. Our approach differed from previous classifications which have required the use of an a priori spatial unit (e.g. a catchment) which necessarily results in the loss of variability that is known to exist within those units. The use of a simple statistical approach to identify an appropriate number of classes eliminated the need for large amounts of post-hoc testing with different number of groups, or the selection and justification of an arbitrary number. Using statistical clustering, we identified 23 distinct groups within our training dataset. The use of a hybrid classification employing random forests extended this statistical clustering to an area of approximately 228,000 km2 of south-eastern Australia without the need to rely on catchments, landscape units or stream sections. This extension resulted in a highly accurate regionalisation at both 30-m and 2.5-km resolution, and a less-accurate 10-km classification that would be more appropriate for use at a continental scale. A smaller case study, of an area covering 27,000 km2, demonstrated that the method preserved the intra- and inter-catchment variability that is known to exist in local hydrology, based on previous research. Preliminary analysis linking the regionalisation to streamflow indices is promising suggesting that the method could be used to predict streamflow behaviour in ungauged catchments. Our work therefore simplifies current classification frameworks that are becoming more popular in ecohydrology, while better retaining small-scale variability in hydrology, thus enabling future attempts to explain and visualise broad-scale hydrologic trends at the scale of catchments and continents.

SUBMITTER: Brown SC

PROVIDER: S-EPMC4232575 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature

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Publications

Hydrologic landscape regionalisation using deductive classification and random forests.

Brown Stuart C SC Lester Rebecca E RE Versace Vincent L VL Fawcett Jonathon J Laurenson Laurie L

PloS one 20141114 11

Landscape classification and hydrological regionalisation studies are being increasingly used in ecohydrology to aid in the management and research of aquatic resources. We present a methodology for classifying hydrologic landscapes based on spatial environmental variables by employing non-parametric statistics and hybrid image classification. Our approach differed from previous classifications which have required the use of an a priori spatial unit (e.g. a catchment) which necessarily results i ...[more]

PMID: 25396410

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Project description:We apply the hydrologic landscape (HL) concept to assess the hydrologic vulnerability of the western United States (U.S.) to projected climate conditions. Our goal is to understand the potential impacts of hydrologic vulnerability for stakeholder-defined interests across large geographic areas. The basic assumption of the HL approach is that catchments that share similar physical and climatic characteristics are expected to have similar hydrologic characteristics. We use the hydrologic landscape vulnerability approach (HLVA) to map the HLVA index (an assessment of climate vulnerability) by integrating hydrologic landscapes into a retrospective analysis of historical data to assess variability in future climate projections and hydrology, which includes temperature, precipitation, potential evapotranspiration, snow accumulation, climatic moisture, surplus water, and seasonality of water surplus. Projections that are beyond 2 standard deviations of the historical decadal average contribute to the HLVA index for each metric. Separating vulnerability into these seven separate metrics allows stakeholders and/or water resource managers to have a more specific understanding of the potential impacts of future conditions. We also apply this approach to examine case studies. The case studies (Mt. Hood, Willamette Valley, and Napa-Sonoma Valley) are important to the ski and wine industries and illustrate how our approach might be used by specific stakeholders. The resulting vulnerability maps show that temperature and potential evapotranspiration are consistently projected to have high vulnerability indices for the western U.S. Precipitation vulnerability is not as spatially uniform as temperature. The highest-elevation areas with snow are projected to experience significant changes in snow accumulation. The seasonality vulnerability map shows that specific mountainous areas in the west are most prone to changes in seasonality, whereas many transitional terrains are moderately susceptible. This paper illustrates how HL and the HLVA can help assess climatic and hydrologic vulnerability across large spatial scales. By combining the HL concept and HLVA, resource managers could consider future climate conditions in their decisions about managing important economic and conservation resources.

Project description:BACKGROUND:Single-nucleotide polymorphisms (SNPs) selection and identification are the most important tasks in Genome-wide association data analysis. The problem is difficult because genome-wide association data is very high dimensional and a large portion of SNPs in the data is irrelevant to the disease. Advanced machine learning methods have been successfully used in Genome-wide association studies (GWAS) for identification of genetic variants that have relatively big effects in some common, complex diseases. Among them, the most successful one is Random Forests (RF). Despite of performing well in terms of prediction accuracy in some data sets with moderate size, RF still suffers from working in GWAS for selecting informative SNPs and building accurate prediction models. In this paper, we propose to use a new two-stage quality-based sampling method in random forests, named ts-RF, for SNP subspace selection for GWAS. The method first applies p-value assessment to find a cut-off point that separates informative and irrelevant SNPs in two groups. The informative SNPs group is further divided into two sub-groups: highly informative and weak informative SNPs. When sampling the SNP subspace for building trees for the forest, only those SNPs from the two sub-groups are taken into account. The feature subspaces always contain highly informative SNPs when used to split a node at a tree. RESULTS:This approach enables one to generate more accurate trees with a lower prediction error, meanwhile possibly avoiding overfitting. It allows one to detect interactions of multiple SNPs with the diseases, and to reduce the dimensionality and the amount of Genome-wide association data needed for learning the RF model. Extensive experiments on two genome-wide SNP data sets (Parkinson case-control data comprised of 408,803 SNPs and Alzheimer case-control data comprised of 380,157 SNPs) and 10 gene data sets have demonstrated that the proposed model significantly reduced prediction errors and outperformed most existing the-state-of-the-art random forests. The top 25 SNPs in Parkinson data set were identified by the proposed model including four interesting genes associated with neurological disorders. CONCLUSION:The presented approach has shown to be effective in selecting informative sub-groups of SNPs potentially associated with diseases that traditional statistical approaches might fail. The new RF works well for the data where the number of case-control objects is much smaller than the number of SNPs, which is a typical problem in gene data and GWAS. Experiment results demonstrated the effectiveness of the proposed RF model that outperformed the state-of-the-art RFs, including Breiman's RF, GRRF and wsRF methods.

Dataset Information

Hydrologic landscape regionalisation using deductive classification and random forests.

Publications

Hydrologic landscape regionalisation using deductive classification and random forests.

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