Sequence data, phylogenetic inference, and implications of downward causation

K Fitzhugh - Acta biotheoretica, 2016 - Springer
Framing systematics as a field consistent with scientific inquiry entails that inferences of
phylogenetic hypotheses have the goal of producing accounts of past causal events that …

Phylogenetic inference and the misplaced premise of substitution rates

K Fitzhugh - Acta biotheoretica, 2021 - Springer
Three competing 'methods' have been endorsed for inferring phylogenetic hypotheses:
parsimony, likelihood, and Bayesianism. The latter two have been claimed superior because …

[HTML][HTML] The abduction of phylogenetic hypotheses

K Fitzhugh - Zootaxa, 2006 - mapress.com
The formal structure of the inference of a phylogenetic hypothesis is analyzed in the context
of the different classes of reasoning applied in all fields of science. Rather than making the …

[HTML][HTML] Phylogenies and comparative biology, stage II: testing causal hypotheses derived from phylogenies with data from extant taxa

JB Losos - Systematic Biology, 1996 - cales.arizona.edu
The revolution in comparative biology that occurred over the past 15 years stemmed from
two related developments. In the early 1980's, a number of workers argued that …

Phylogenetic inference to the best explanation and the bad lot argument

A Quinn - Synthese, 2016 - Springer
I respond to the bad lot argument in the context of biological systematics. The response
relies on the historical nature of biological systematics and on the availability of pattern …

Abductive inference: implications for 'Linnean'and 'phylogenetic'approaches for representing biological systematization

K Fitzhugh - Evolutionary Biology, 2008 - Springer
A common claim among advocates of the 'phylogenetic'system of nomenclature (PN) is that
the 'Linnean'system (LN) is defective because it fails to promote stability, universality, and …

Philosophical conjectures and their refutation

AG Kluge - Systematic Biology, 2001 - academic.oup.com
Abstract Sir Karl Popper is well known for explicating science in falsificationist terms, for
which his degree of corroboration formalism, C (h, e, b), has become little more than a …

[PDF][PDF] The limits of understanding in biological systematics

K Fitzhugh - Zootaxa, 2012 - biotaxa.org
Abstract Ernst Mayr's (1961, Science 131: 1501–1506) distinction between proximate and
ultimate causation in biology is examined with regard to the acquisition of understanding in …

The 'requirement of total evidence'and its role in phylogenetic systematics

K Fitzhugh - Biology and Philosophy, 2006 - Springer
The question of whether or not to partition data for the purposes of inferring phylogenetic
hypotheses remains controversial. Opinions have been especially divided since Kluge's …

Causes, proximate and ultimate

RC Francis - Biology and Philosophy, 1990 - Springer
Within evolutionary biology a distinction is frequently made between proximate and ultimate
causes. One apparently plausible interpretation of this dichotomy is that proximate causes …