Recommendation domains for pond aquaculture

This publication introduces the methods and results of a research project that has developed a set of decision-support tools to identify places and sets of conditions for which a particular target aquaculture technology is considered feasible and therefore good to promote. The tools also identify the nature of constraints to aquaculture development and thereby shed light on appropriate interventions to realize the potential of the target areas. The project results will be useful for policy planners and decision makers in national, regional and local governments and development funding agencies, aquaculture extension workers in regional and local governments, and researchers in aquaculture systems and rural livelihoods. (Document contains 40 pages

ABC random forests for Bayesian parameter inference

This preprint has been reviewed and recommended by Peer Community In Evolutionary Biology (http://dx.doi.org/10.24072/pci.evolbiol.100036). Approximate Bayesian computation (ABC) has grown into a standard methodology that manages Bayesian inference for models associated with intractable likelihood functions. Most ABC implementations require the preliminary selection of a vector of informative statistics summarizing raw data. Furthermore, in almost all existing implementations, the tolerance level that separates acceptance from rejection of simulated parameter values needs to be calibrated. We propose to conduct likelihood-free Bayesian inferences about parameters with no prior selection of the relevant components of the summary statistics and bypassing the derivation of the associated tolerance level. The approach relies on the random forest methodology of Breiman (2001) applied in a (non parametric) regression setting. We advocate the derivation of a new random forest for each component of the parameter vector of interest. When compared with earlier ABC solutions, this method offers significant gains in terms of robustness to the choice of the summary statistics, does not depend on any type of tolerance level, and is a good trade-off in term of quality of point estimator precision and credible interval estimations for a given computing time. We illustrate the performance of our methodological proposal and compare it with earlier ABC methods on a Normal toy example and a population genetics example dealing with human population evolution. All methods designed here have been incorporated in the R package abcrf (version 1.7) available on CRAN.Comment: Main text: 24 pages, 6 figures Supplementary Information: 14 pages, 5 figure

Estimating forest structure in a tropical forest using field measurements, a synthetic model and discrete return lidar data

Tropical forests are huge reservoirs of terrestrial carbon and are experiencing rapid degradation and deforestation. Understanding forest structure proves vital in accurately estimating both forest biomass and also the natural disturbances and remote sensing is an essential method for quantification of forest properties and structure in the tropics. Our objective is to examine canopy vegetation profiles formulated from discrete return LIght Detection And Ranging (lidar) data and examine their usefulness in estimating forest structural parameters measured during a field campaign. We developed a modeling procedure that utilized hypothetical stand characteristics to examine lidar profiles. In essence, this is a simple method to further enhance shape characteristics from the lidar profile. In this paper we report the results comparing field data collected at La Selva, Costa Rica (10° 26′ N, 83° 59′ W) and forest structure and parameters calculated from vegetation height profiles and forest structural modeling. We developed multiple regression models for each measured forest biometric property using forward stepwise variable selection that used Bayesian information criteria (BIC) as selection criteria. Among measures of forest structure, ranging from tree lateral density, diameter at breast height, and crown geometry, we found strong relationships with lidar canopy vegetation profile parameters. Metrics developed from lidar that were indicators of height of canopy were not significant in estimating plot biomass (p-value = 0.31, r2 = 0.17), but parameters from our synthetic forest model were found to be significant for estimating many of the forest structural properties, such as mean trunk diameter (p-value = 0.004, r2 = 0.51) and tree density (p-value = 0.002, r2 = 0.43). We were also able to develop a significant model relating lidar profiles to basal area (p-value = 0.003, r2 = 0.43). Use of the full lidar profile provided additional avenues for the prediction of field based forest measure parameters. Our synthetic canopy model provides a novel method for examining lidar metrics by developing a look-up table of profiles that determine profile shape, depth, and height. We suggest that the use of metrics indicating canopy height derived from lidar are limited in understanding biomass in a forest with little variation across the landscape and that there are many parameters that may be gleaned by lidar data that inform on forest biometric properties

Application of the EM-algorithm for Bayesian network modelling to improve forest growth estimates

AbstractLeaf area index (LAI) is a biophysical variable that is related to atmosphere-biosphere exchange of CO2. One way to obtain LAI value is by the Moderate Resolution Imaging Spectroradiometer (MODIS) biophysical products (LAI MODIS). The LAI MODIS has been used to improve the physiological principles predicting growth (3-PG) model within a Bayesian Network (BN) set-up. The MODIS time series, however, contains gaps caused by persistent clouds, cloud contamination, and other retrieval problems. We therefore formulated the EM-algorithm to estimate the missing MODIS LAI values. The EM-algorithm is applied to three different cases: successive and not successive two winter seasons, and not successive missing MODIS LAI during the time study of 26 successive months at which the performance of the BN is assessed. Results show that the MODIS LAI is estimated such that the maximum value of the mean absolute error between the original MODIS LAI and the estimated MODIS LAI by EM-algorithm is 0.16. This is a low value, and shows the success of our approach. Moreover, the BN output improves when the EM-algorithm is carried out to estimate the inconsecutive missing MODIS LAI such that the root mean square error reduces from 1.57 to 1.49. We conclude that the EM-algorithm within a BN can handle the missing MODIS LAI values and that it improves estimation of the LAI

A problem-structuring model for analyzing transportation–environment relationships

This is the post-print version of the final paper published in European Journal of Operational Research. The published article is available from the link below. Changes resulting from the publishing process, such as peer review, editing, corrections, structural formatting, and other quality control mechanisms may not be reflected in this document. Changes may have been made to this work since it was submitted for publication. Copyright @ 2009 Elsevier B.V.This study discusses a decision support framework that guides policy makers in their strategic transportation related decisions by using multi-methodology. For this purpose, a methodology for analyzing the effects of transportation policies on environment, society, economy, and energy is proposed. In the proposed methodology, a three-stage problem structuring model is developed. Initially, experts’ opinions are structured by using a cognitive map to determine the relationships between transportation and environmental concepts. Then a structural equation model (SEM) is constructed, based on the cognitive map, to quantify the relations among external transportation and environmental factors. Finally the results of the SEM model are used to evaluate the consequences of possible policies via scenario analysis. In this paper a pilot study that covers only one module of the whole framework, namely transportation–environment interaction module, is conducted to present the applicability and usefulness of the methodology. This pilot study also reveals the impacts of transportation policies on the environment. To achieve a sustainable transportation system, the extent of the relationships between transportation and the environment must be considered. The World Development Indicators developed by the World Bank are used for this purpose