Search results for "ta112"
showing 10 items of 69 documents
Mark-recapture estimation of mortality and migration rates for sea trout (Salmo trutta) in the northern Baltic sea
2016
Knowledge of current fishing mortality rates is an important prerequisite for formulating management plans for the recovery of threatened stocks. We present a method for estimating migration and fishing mortality rates for anadromous fishes that combines tag return data from commercial and recreational fisheries with expert opinion in a Bayesian framework. By integrating diverse sources of information and allowing for missing data, this approach may be particularly applicable in data-limited situations.Wild populations of anadromous sea trout (Salmo trutta) in the northern Baltic Sea have undergone severe declines, with the loss of many populations. The contribution of fisheries to this dec…
Benchmark database for fine-grained image classification of benthic macroinvertebrates
2018
Managing the water quality of freshwaters is a crucial task worldwide. One of the most used methods to biomonitor water quality is to sample benthic macroinvertebrate communities, in particular to examine the presence and proportion of certain species. This paper presents a benchmark database for automatic visual classification methods to evaluate their ability for distinguishing visually similar categories of aquatic macroinvertebrate taxa. We make publicly available a new database, containing 64 types of freshwater macroinvertebrates, ranging in number of images per category from 7 to 577. The database is divided into three datasets, varying in number of categories (64, 29, and 9 categori…
Efficient estimation of generalized linear latent variable models.
2019
Generalized linear latent variable models (GLLVM) are popular tools for modeling multivariate, correlated responses. Such data are often encountered, for instance, in ecological studies, where presence-absences, counts, or biomass of interacting species are collected from a set of sites. Until very recently, the main challenge in fitting GLLVMs has been the lack of computationally efficient estimation methods. For likelihood based estimation, several closed form approximations for the marginal likelihood of GLLVMs have been proposed, but their efficient implementations have been lacking in the literature. To fill this gap, we show in this paper how to obtain computationally convenient estim…
Variational Approximations for Generalized Linear Latent Variable Models
2017
Generalized linear latent variable models (GLLVMs) are a powerful class of models for understanding the relationships among multiple, correlated responses. Estimation, however, presents a major challenge, as the marginal likelihood does not possess a closed form for nonnormal responses. We propose a variational approximation (VA) method for estimating GLLVMs. For the common cases of binary, ordinal, and overdispersed count data, we derive fully closed-form approximations to the marginal log-likelihood function in each case. Compared to other methods such as the expectation-maximization algorithm, estimation using VA is fast and straightforward to implement. Predictions of the latent variabl…
Extending Joint Models in Community Ecology : A Response to Beissinger et al.
2016
The joint modelling of many variables in community ecology is a new and technically challenging area with many opportunities for future developments. The possibility of extending joint models to deal with imperfect detection has been highlighted by Beissinger et al. as an important problem worthy of further investigation [1]. We agree, and previously pointed to this potential extension as an outstanding question [2], alongside models that can estimate phylogenetic repulsion or attraction, nonlinearity in the response to latent variables, and spatial or temporal correlation, because further developments in all these directions are needed.
Harmonising and linking biomedical and clinical data across disparate data archives to enable integrative cross-biobank research
2015
A wealth of biospecimen samples are stored in modern globally distributed biobanks. Biomedical researchers worldwide need to be able to combine the available resources to improve the power of large-scale studies. A prerequisite for this effort is to be able to search and access phenotypic, clinical and other information about samples that are currently stored at biobanks in an integrated manner. However, privacy issues together with heterogeneous information systems and the lack of agreed-upon vocabularies have made specimen searching across multiple biobanks extremely challenging. We describe three case studies where we have linked samples and sample descriptions in order to facilitate glo…
Follow-Up Data Improve the Estimation of the Prevalence of Heavy Alcohol Consumption.
2018
Aims. We aim to adjust for potential non-participation bias in the prevalence of heavy alcohol consumption. Methods. Population survey data from Finnish health examination surveys conducted in 1987–2007 were linked to the administrative registers for mortality and morbidity follow-up until end of 2014. Utilising these data, available for both participants and non-participants, we model the association between heavy alcohol consumption and alcohol-related disease diagnoses. Results. Our results show that the estimated prevalence of heavy alcohol consumption is on average of 1.5 times higher for men and 1.8 times higher for women than what was obtained from participants only (complete case an…
Participation rates by educational levels have diverged during 25 years in Finnish health examination surveys
2018
Background Declining participation rates in health examination surveys may impair the representativeness of surveys and introduce bias into the comparison of results between population groups if participation rates differ between them. Changes in the characteristics of non-participants over time may also limit comparability with earlier surveys. Methods We studied the association of socio-economic position with participation, and its changes over the past 25 years. Occupational class and educational level are used as indicators of socio-economic position. Data from six cross-sectional FINRISK surveys conducted between 1987 and 2012 in Finland were linked to national administrative registers…
Lifetime cumulative risk factors predict cardiovascular disease mortality in a 50-year follow-up study in Finland.
2015
Summary. Background. Systolic blood pressure, total cholesterol and smoking are known predictors of cardiovascular disease (CVD) mortality. Less is known about the effect of lifetime accumulation and changes of risk factors over time as predictors of CVD mortality, especially in very long follow-up studies. Methods. Data from the Finnish cohorts of the Seven Countries Study were used. The baseline examination was in 1959 and seven re-examinations were carried out approximately in five-year intervals. Cohorts were followed up for mortality until the end of 2011. Time-dependent Cox models with regular time-updated risk factors, time-dependent averages of risk factors and latest changes in ris…
Statistical analysis of life history calendar data
2016
The life history calendar is a data-collection tool for obtaining reliable retrospective data about life events. To illustrate the analysis of such data, we compare the model-based probabilistic event history analysis and the model-free data mining method, sequence analysis. In event history analysis, we estimate instead of transition hazards the cumulative prediction probabilities of life events in the entire trajectory. In sequence analysis, we compare several dissimilarity metrics and contrast data-driven and user-defined substitution costs. As an example, we study young adults' transition to adulthood as a sequence of events in three life domains. The events define the multistate event…