ESTHER: A “R Package” Implementing a Novel Approach to Bidimen-sional Display of Multidimensional Binary Data

Cardinali, Gianluigi; Antonielli, Livio; Rellini, Paolo; Fatichenti, F.

doi:10.2174/1874136300701010020

Cited by 2 publications

(1 citation statement)

References 9 publications

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“…Statistical analyses were carried out in the open source programmable "R" environment (http://cran.r-project.org/) [14] with the addition of the packages VEGAN (http://cran.rproject.org/web/packages/vegan/index.html) [15], ADE4 (http:// cran.r-project.org/web/packages/ade4/index.html) [16], APE (http://cran.r-project.org/web/packages/ape/index.html) [17] and ESTHER [18].…”

Section: Statistical Analysesmentioning

confidence: 99%

A Multidisciplinary Approach to the Microbial Species Concept: The Role of Bioinformatics in the Search of Detectable Discontinuities

Antonielli¹

2011

TOAINFOJ

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The problem of species and in particular microbial species is central in biology. An active collaboration of various specialists such as taxonomists, epistemologists, mathematicians and bioinformatics experts is desirable for its solution.This article intended to show the possibilities and perspectives of bioinformatics research in understanding the ontological problem of species, i.e. the problem of the existence of the microbial species. The approach undertaken of this paper is based on the concept that if microbial species exist, then there should be detectable discontinuities or disconnections between microorganisms assigned to different species. A yeast model has been used to show how the distances from a reference organism raise with the increase of the number of different strains included in the study.

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Section: Statistical Analysesmentioning

confidence: 99%

A Multidisciplinary Approach to the Microbial Species Concept: The Role of Bioinformatics in the Search of Detectable Discontinuities

Antonielli¹

2011

TOAINFOJ

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Centrality of Objects in a Multidimensional Space and its Effects on Distance-Based Biological Classifications

Antonielli¹,

Corte²,

Roscini³

et al. 2011

TOAINFOJ

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Abstract:Typology is based on the concept that one individual (the type) can represent the whole group. In yeast taxonomy the type strain is the representative of the whole species and is considered an important tool for classification. Although the evolutionary, phylogenetic and biological species concepts are in contrast with this approach, the International Codes of nomenclature still use typology, which remains one of the most operative systems. These incongruities demand a multidisciplinary investigation on the nature of the type, its characteristics and the possibility of the type to be defined on the basis of a shareable criterion. In this paper we present an approach to the problem of type centrality based on mathematical demonstrations and numerical examples. This paper intended to show the possibilities offered to bioinformatics research by the implementation of multidisciplinary approaches in biology and in proposing a general approach to the definition of the type representing any sort of set, described with multiple descriptors.

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ESTHER: A “R Package” Implementing a Novel Approach to Bidimen-sional Display of Multidimensional Binary Data

Cited by 2 publications

References 9 publications

A Multidisciplinary Approach to the Microbial Species Concept: The Role of Bioinformatics in the Search of Detectable Discontinuities

A Multidisciplinary Approach to the Microbial Species Concept: The Role of Bioinformatics in the Search of Detectable Discontinuities

Centrality of Objects in a Multidimensional Space and its Effects on Distance-Based Biological Classifications

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