Under Review Since : 2019-01-02

Inhere we expand the concept of Holobiont to incorporate niche construction theory in order to increase our understanding of the current planetary crisis. By this, we propose a new ontology, the Ecobiont, as the basic evolutionary unit of analysis. We make the case of \textit{Homo Sapiens} organized around modern cities (technobionts) as a different Ecobiont from classical \textit{Homo Sapiens} (i.e. Hunter-gatherers \textit{Homo Sapiens}). We consider that Ecobiont ontology helps to make visible the coupling of \textit{Homo Sapiens} with other biological entities under processes of natural and cultural evolution. Not to see this coupling hidden systemic risks and enhance the probability of catastrophic events. So Ecobiont ontology is necessary to understand and respond to the current planetary crisis.

Under Review Since : 2018-12-31

Headwater streams are essential to downstream water quality, therefore it is important they are properly represented on maps used for stream regulation. Current maps used for stream regulation, such as the United States Geological Survey (USGS) topographic maps and Natural Resources Conservation Service (NRCS) soil survey maps, are outdated and do not accurately nor consistently depict headwater streams. In order for new stream maps to be used for regulatory purposes, the accuracy must be known and the maps must show streams with a consistent level of accuracy. This study assessed the valley presence/absence and stream length accuracy of the new stream maps created by the North Carolina Center for Geographic Analysis (CGIA) for western North Carolina. The CGIA stream map does not depict headwater streams with a consistent level of accuracy. This study also compared the accuracy of stream networks modeled using the computer software program, Terrain Analysis using Digital Elevation Models (TauDEM), to the CGIA stream map. The stream networks modeled in TauDEM, also do not consistently predict the location of headwater streams across the mountain region of the state. The location of headwater streams could not be accurately nor consistently predicted by solely using aerial photography or elevation data. Other factors such as climate, soils, geology, land use, and vegetation cover should be considered to accurately and consistently model headwater stream networks.

Under Review Since : 2018-12-28

Metric Temporal Logic (MTL) is a popular formalism to specify patterns with timing constraints over the behavior of cyber-physical systems. In this paper, I propose sequential networks for online monitoring applications and construct network-based monitors from the past fragment of MTL over discrete and dense time behaviors. This class of monitors is more compositional, extensible, and easily implementable than other monitors based on rewriting and automata. I first explain the sequential network construction over discrete time behaviors and then extend it towards dense time by adopting a point-free approach. The formulation for dense time behaviors and MTL radically differs from the traditional pointy definitions and in return, we avoid some longstanding complications. I argue that the point-free approach is more natural and practical therefore should be preferred for the dense time. Finally, I present my implementation together with some experimental results that show the performance of the network-based monitors compared to similar existing tools.

Under Review Since : 2018-12-17

Analogue gravity models are attempts to model general relativity by using such things as acoustic waves propagating through an ideal fluid. In his work, we take inspiration from these models to re-interpret general relativity in terms of an ether continuum moving and changing against a background of absolute space and time. We reformulate the metric, the Ricci tensor, the Einstein equation, continuous matter dynamics in terms of the ether. We also reformulate general relativistic electrodynamics in terms of the ether, which takes the form of electrodynamics in an anisotropic moving medium. Some degree of simplification is achieved by assuming that the speed-of-light is uniform and isotropic with respect to the ether coordinates. Finally, we speculate on the nature of under-determination in general relativity.

Under Review Since : 2018-12-05

Nonparametric estimation of a mixing density based on observations from the corresponding mixture is a challenging statistical problem. This paper surveys the literature on a fast, recursive estimator based on the *predictive recursion* algorithm. After introducing the algorithm and giving a few examples, I summarize the available asymptotic convergence theory, describe an important semiparametric extension, and highlight two interesting applications. I conclude with a discussion of several recent developments in this area and some open problems.

Under Review Since : 2018-12-05

Bayesian methods provide a natural means for uncertainty quantification, that is, credible sets can be easily obtained from the posterior distribution. But is this uncertainty quantification valid in the sense that the posterior credible sets attain the nominal frequentist coverage probability? This paper investigates the validity of posterior uncertainty quantification based on a class of empirical priors in the sparse normal mean model. We prove that there are scenarios in which the empirical Bayes method provides valid uncertainty quantification while other methods may not, and finite-sample simulations confirm the asymptotic findings.

Under Review Since : 2018-12-04

Reality has two different dimensions: information-communication, and matter-energy. They relate to each other in a figure-ground gestalt that gives two different perspectives on the one reality.

1. We learn from modern telecommunications that matter and energy are the **media** of information and communication; here information is the figure and matter/enegy is the ground.

2. We learn from cybernetics that information and communication **control** matter and energy; here matter/energy is the figure and information/communication is the ground.

Under Review Since : 2018-12-04

The cybernetic control loop can be understood as a decision making process, a command and control process. Information controls matter and energy. Decision making has four necessary and sufficient communication processes: act, sense, evaluate, choose. These processes are programmed by the environment, the model, values and alternatives.

Under Review Since : 2018-12-04

The idea that information is entropy is an error. The proposal is neither mathematically nor logically valid. There are numerous definitions of entropy, but there is no definition of entropy for which this equation is valid. Information is information. It is neither matter nor energy.

Under Review Since : 2018-12-03

Internet is increasingly important for our economies and societies. This is the reason for a growing interest in internet regulation. The stakes in network neutrality - that all traffic on the internet should be treated equally - are particularly high. This paper argues that technological, civil-libertarian, legal and economic arguments exist both for- and against net neutrality and that the decision is ultimately political. We therefore frame the issue of net neutrality as an issue of political economy. The main political economy arguments for net neutrality are that a net-neutral internet contributes to the reduction of inequality, preserves its openness and prevents artificial scarcity. With these arguments Slovenia, after Chile and the Netherlands, adopted net neutrality legislation. We present it as a case study for examining how political forces are affecting the choice of economic and technological policies. After a few years we are finding that proper enforcement is just as important as legislation.

Under Review Since : 2018-11-22

Physicalism, which provides the philosophical basis of modern science, holds that consciousness is solely a product of brain activity, and more generally, that mind is an epiphenomenon of matter, that is, derivable from and reducible to matter. If mind is reducible to matter, then it follows that identical states of matter must correspond to identical states of mind.

In this discourse, I provide a cogent refutation of physicalism by showing examples of physically identical states which, by definition, cannot be distinguished by any method available to science but can nevertheless be distinguished by a conscious observer. I conclude by giving an example of information that is potentially knowable by an individual but is beyond the ken of science.

Under Review Since : 2018-11-22

Philosophers have long pondered the Problem of Universals. One response is Metaphysical Realism, such as Plato's Doctrine of the Forms and Aristotle's Hylomorphism. We postulate that Measurement in Quantum Mechanics forms the basis of Metaphysical Realism. It is the process that gives rise to the instantiation of Universals as Properties, a process we refer to as Hylomorphic Functions. This combines substance metaphysics and process metaphysics by identifying the instantiation of Universals as causally active processes along with physical substance, forming a dualism of both substance and information. Measurements of fundamental properties of matter are the Atomic Universals of metaphysics, which combine to form the whole taxonomy of Universals. We look at this hypothesis in relation to various different interpretations of Quantum Mechanics grouped under two exemplars: the Copenhagen Interpretation, a version of Platonic Realism based on wave function collapse, and the Pilot Wave Theory of Bohm and de Broglie, where particle--particle interactions lead to an Aristotelian metaphysics. This view of Universals explains the distinction between pure information and the medium that transmits it and establishes the arrow of time. It also distinguishes between univerally true Atomic Facts and the more conditional Inferences based on them. Hylomorphic Functions also provide a distinction between Universals and Tropes based on whether a given Property is a physical process or is based on the qualia of an individual organism. Since the Hylomorphic Functions are causally active, it is possible to suggest experimental tests that can verify this viewpoint of metaphysics.

Under Review Since : 2018-12-05

The nature of consciousness has been one of the longest-standing open questions in philosophy. Advancements in physics, neuroscience, and information theory have informed and constrained this topic, but have not produced any consensus. What would it mean to ‘solve’ or ‘dissolve’ the mystery of consciousness?

Part I begins with grounding this topic by considering a concrete question: what makes some conscious experiences more pleasant than others? We first review what’s known about the neuroscience of pain & pleasure, find the current state of knowledge narrow, inconsistent, and often circular, and conclude we must look elsewhere for a systematic framework (Sections I & II). We then review the Integrated Information Theory (IIT) of consciousness and several variants of IIT, and find each of them promising, yet also underdeveloped and flawed (Sections III-V).

We then take a step back and distill what kind of problem consciousness *is*. Importantly, we offer eight sub-problems whose solutions would, in aggregate, constitute a *complete theory of consciousness* (Section VI).

Armed with this framework, in Part II we return to the subject of pain & pleasure (valence) and offer some assumptions, distinctions, and heuristics to clarify and constrain the problem (Sections VII-IX). Of particular interest, we then offer a specific hypothesis on what valence *is* (Section X) and several novel empirical predictions which follow from this (Section XI). Part III finishes with discussion of how this general approach may inform open problems in neuroscience, and the prospects for building a new science of qualia (Sections XII & XIII). Lastly, we identify further research threads within this framework (Appendices A-F).

Published Date : 2018-11-13

This paper argues that experimental evidence, quantum theory, and relativity theory, taken together, suggest that reality is relational: Properties and behaviors of phenomena do not have a priori, intrinsic values; instead, these properties and behaviors emerge through interactions with other systems.

Under Review Since : 2018-11-05

Published Date : 2018-11-01

Francis Perey, of the Engineering Physics Division of Oak Ridge National Lab, left a number of unpublished papers upon his death in 2017. They circulate around the idea of probabilities arising naturally from basic physical laws. One of his papers, Application of Group Theory to Data Reduction, was published as an ORNL white paper in 1982. This collection includes two earlier works and two that came later, as well as a relevant presentation. They are being published now so that the ideas in them will be available to interested parties.

Under Review Since : 2018-10-22

The potential for an infectious disease outbreak that is much worse than those which have been observed in human history, whether engineered or natural, has been the focus of significant concern in biosecurity. Fundamental dynamics of disease spread make such outbreaks much less likely than they first appear. Here we present a slightly modified formulation of the typical SEIR model that illustrates these dynamics more clearly, and shows the unlikely cases where concern may still be warranted. This is then applied to an extreme version of proposed pandemic risk, multi-disease syndemics, to show that (absent much clearer reasons for concern) the suggested dangers are overstated.

Under Review Since : 2018-10-03

This note generalizes the notion of conditional probability to Riesz spaces using the order-theoretic approach. With the aid of this concept, we establish the law of total probability and Bayes' theorem in Riesz spaces; we also prove an inclusion-exclusion formula in Riesz spaces. Several examples are provided to show that the law of total probability, Bayes' theorem and inclusion-exclusion formula in probability theory are special cases of our results.

Under Review Since : 2018-09-18

To justify the effort of developing a theoretical construct, a theoretician needs empirical data that support a non-random effect of sufficiently high replication-probability. To establish these effects statistically, researchers (rightly) rely on a *t*-test. But many pursue questionable strategies that lower the cost of data-collection. Our paper reconstructs two such strategies. Both reduce the minimum sample-size (N_{MIN}) sufficing under conventional errors (*α*, *β*) to register a given effect-size (*d*) as a statistically significant non-random data signature. The first strategy increases the *β*-error; the second treats the control-group as a constant, thereby collapsing a two-sample *t*-test into its one-sample version. (A two-sample *t*-test for *d*=0.50 under a*=β*=0.05 with N_{MIN}=176, for instance, becomes a one-sample *t*-test under a*=*0.05, *β*=0.20 with N_{MIN}=27.) Not only does this decrease the replication-probability of data from (1-*β*)=0.95 to (1-*β*)=0.80, particularly the second strategy cannot corroborate hypotheses meaningfully. The ubiquity of both strategies arguably makes them partial causes of the confidence-crisis. But as resource-pooling would allow research groups reach N_{MIN} jointly, a group’s individually limited resources justify neither strategy.

Published Date : 2018-09-15

This article describes our motivation behind the development of RESEARCHERS.ONE, our mission, and how the new platform will fulfull this mission. We also compare our approach with other recent reform initiatives such as post-publication peer review and open access publications.

Under Review Since : 2018-09-15

Under Review Since : 2018-09-14

This paper is a synthesis of the deposition in front of the Financial Crisis Inquiry Commission by the Obama Administration in 2010. Note that none of its ideas made it to the report.

Under Review Since : 2018-09-14

This article describes how the filtering role played by peer review may actually be harmful rather than helpful to the quality of the scientific literature. We argue that, instead of trying to filter out the low-quality research, as is done by traditional journals, a better strategy is to let everything through but with an acknowledgment of the uncertain quality of what is published, as is done on the RESEARCHERS.ONE platform. We refer to this as "scholarly mithridatism." When researchers approach what they read with doubt rather than blind trust, they are more likely to identify errors, which protects the scientific community from the dangerous effects of error propagation, making the literature stronger rather than more fragile.

Published Date : 2018-09-14

Penalized maximum likelihood methods that perform automatic variable are now ubiquitous in statistical research. It is well-known, however, that these estimators are nonregular and consequently have limiting distributions that can be highly sensitive to small perturbations of the underlying generative model. This is the case even for the ﬁxed “p” framework. Hence, the usual asymptotic methods for inference, like the bootstrap and series approximations, often perform poorly in small samples and require modiﬁcation. Here, we develop locally asymptotically consistent conﬁdence intervals for regression coeﬃcients when estimation is done using the Adaptive LASSO (Zou, 2006) in the ﬁxed “p” framework. We construct the conﬁdence intervals by sandwiching the nonregular functional of interest between two smooth, data-driven, upper and lower bounds and then approximating the distribution of the bounds using the bootstrap. We leverage the smoothness of the bounds to obtain consistent inference for the nonregular functional under both ﬁxed and local alternatives. The bounds are adaptive to the amount of underlying nonregularity in the sense that they deliver asymptotically exact coverage whenever the underlying generative model is such that the Adaptive LASSO estimators are consistent and asymptotically normal, and conservative otherwise. The resultant conﬁdence intervals possess a certain tightness property among all regular bounds. Although we focus on the Adaptive LASSO, our approach generalizes to other penalized methods. (Originally published as a technical report in 2014.)

Under Review Since : 2018-09-09

Prediction markets are currently used for three fields: 1. For economic, political and sporting event outcomes. (IEW, PredictIt, PredictWise) 2. For risk evaluation, product development and marketing. (Cultivate Labs/Consensus Point) 3. Research replication. (Replication Prediction Project, Experimental Economics Prediction Project, and Brian Nosek’s latest replicability study) The latter application of prediction markets has remained closed and/or proprietary despite the promising results in the methods. In this paper, I construct an open research prediction market framework to incentivize replicate study research and align the motivations of research stakeholders.

Under Review Since : 2018-10-05

Ever since Charles Darwin admitted Patrick Matthew's priority in 1860, the latter's book *On Naval Timber and Arboriculture* is thought to contain the first clear and complete anticipation of the idea of (macro-)evolution through natural selection. Most publications dealing with Matthew, however, merely repeated the little that was known about Matthew through articles by Walther May and William Calman and re-printed the ever same pieces of correspondence and excerpts from Matthew’s book. Apart from this repeating of old lore, stronger claims merely jumped to the conclusion that Charles Darwin plagiarised Patrick Matthew from facts that are equivocal and have never been scrutinised within their historical context. This publication attempts to establish a proper historiography of Patrick Matthew, where there is currently mere repetition of old tales or tossing around of tall claims. The tall claims about Matthew raise questions that need to be properly addressed and put in historical perspective before tentative conclusions can be drawn.

A reader that knows a good deal about evolutionary theory and its history but nothing about Patrick Matthew will naturally ask the following questions when confronted with tall claims: Who, what, where, how? Who was that Patrick Matthew? What exactly did he anticipate? Wherein did he publish this anticipation? How did his contemporaries receive it? On careful inspection of the evidence and its context, none of these questions can be answered in a simple and definitive way. This should come as no surprise after 150 years without a proper historiography of Patrick Matthew and, instead, a mixture of repeating lore and jumping to unwarranted conclusions. The following, therefore, demands of the reader to endure the suspense of not knowing some things for sure, because of the incomplete historical record, and the courtesy to excuse an unknown author enlarging on an unknown protagonist. On the other hand, it highlights how many interesting historical inquiries await talented students. Each question opens a historical panorama when addressed with an open mind rather than prejudices, orthodox or revisionist.

Many archival sources given below are new to the historical canon of evolutionary biology. They are quoted verbatim when that is the most succinct way to support an argument. Each chapter is preceded by a captivating vignette, in present tense and different font, in order to whet the readers’ appetite. The style of the vignettes also differs from the other sections in that citations are put into footnotes, in order to keep the flow of reading uninterrupted. The citation style is scientific within the chapters, in order to ease the tracking and cross-checking for interested scholars, who want to follow up with their own inquiries. Some dramatising has been introduced in some of the vignettes, like the one that follows below. These extrapolations have been performed without affecting the historical facts, and they were written with sympathy for *all* the protagonists.

The heading of each chapter is a question and the chapters are referred to as Q1 to Q9. The chapters themselves are subdivided into a summary part, the evidence that will seem excessive to some readers (they may skip it) and not enough to others (they may follow up with their own inquiries), and a conclusion. As an exception, Q3-Q5 are summarised and concluded together because they form a comparison, as a group, of the respective transmutation mechanisms of Patrick Matthew, Charles Darwin, and Alfred Wallace. [Chapters Q3-Q5 are based on an article that has previously been published in the *Biological Journal of the Linnean Society* 123(4).]

Part 1 addresses Patrick Matthew’s life. In particular, Q1 refutes the widespread myth that Patrick Matthew studied medicine at the University of Edinburgh until his father died in 1807. Q2 shows that this student of medicine was a namesake from Newbigging. Part 2 addresses the book *On Naval Timber and Arboriculture* of Patrick Matthew. In particular, Q3-Q5 compare the transmutation mechanisms of Matthew, Darwin and Wallace. This shows that the similarities between their schemes are superficial amounting to no more than that they all include natural selection somehow and lead to species transmutation somehow else. Without the retrospective that inflates the importance of natural selection over all other parts of the theories in question, they are as different as Cuvier’s and Matthew’s, say, or Lyell’s and Darwin’s theories. Q6 reveals what further information can be gleaned from the book about its kludgy composition. Part 3 sheds light on the reception of Matthew’s book by his contemporaries that refutes the myths of its utter non-reception and the opposite myth of its perfect reception. In particular, Q7-Q9 look at the roles of three popularisers of science, who have been claimed to have communicated Matthew’s ideas on natural selection and species transformation to Charles Darwin and Alfred Wallace respectively. First, Robert Chambers probably never read the book of Matthew. Second, John Loudon may or may not have been the author of an anonymous review of Matthew’s book in the *Gardener’s Magazine*. The only question remaining is why did Darwin miss the short passage about the origin of species in that review? As it starts by recounting matters of naval timber, shipbuilding and other issues of no interest to Darwin, however, it is easy to see how he might have inadvertently skipped the crucial passage. Third, Prideaux Selby read Matthew’s book but did not understand Matthew’s idea on ecological competition, which was a prerequisite for comprehending his evolutionary ideas. Even if he had understood, however, it is hard to see how he is supposed to have communicated the intelligence to Wallace in the Malay Archipelago.

The file is also deposited at: https://www.dropbox.com/s/wn4o8w2gmhyvdpy/FAQ%20Matthew_resone.pdf?dl=0

Under Review Since : 2018-09-06

Extreme values are by definition rare, and therefore a spatial analysis of extremes is attractive because a spatial analysis makes full use of the data by pooling information across nearby locations. In many cases, there are several dependent processes with similar spatial patterns. In this paper, we propose the first multivariate spatial models to simultaneously analyze several processes. Using a multivariate model, we are able to estimate joint exceedance probabilities for several processes, improve spatial interpolation by exploiting dependence between processes, and improve estimation of extreme quantiles by borrowing strength across processes. We propose models for separable and non-separable, and spatially continuous and discontinuous processes. The method is applied to French temperature data, where we find an increase in the extreme temperatures over time for much of the country.

Under Review Since : 2018-09-04

In a Bayesian context, prior specification for inference on monotone densities is conceptually straightforward, but proving posterior convergence theorems is complicated by the fact that desirable prior concentration properties often are not satisfied. In this paper, I first develop a new prior designed specifically to satisfy an empirical version of the prior concentration property, and then I give sufficient conditions on the prior inputs such that the corresponding empirical Bayes posterior concentrates around the true monotone density at nearly the optimal minimax rate. Numerical illustrations also reveal the practical benefits of the proposed empirical Bayes approach compared to Dirichlet process mixtures.

Under Review Since : 2018-09-04

Accurate estimation of value-at-risk (VaR) and assessment of associated uncertainty is crucial for both insurers and regulators, particularly in Europe. Existing approaches link data and VaR indirectly by first linking data to the parameter of a probability model, and then expressing VaR as a function of that parameter. This indirect approach exposes the insurer to model misspecification bias or estimation inefficiency, depending on whether the parameter is finite- or infinite-dimensional. In this paper, we link data and VaR directly via what we call a discrepancy function, and this leads naturally to a Gibbs posterior distribution for VaR that does not suffer from the aforementioned biases and inefficiencies. Asymptotic consistency and root-*n* concentration rate of the Gibbs posterior are established, and simulations highlight its superior finite-sample performance compared to other approaches.

Under Review Since : 2018-09-02

We prove an observation of Makkai that FOLDS equivalence coincides with homotopy equivalence in the case of semi-simplicial sets.

Under Review Since : 2018-09-01

The Art of The Election: A Social Media History of the 2016 Presidential Race

Abstract

The book is 700 pages comprising of Donald Trump’s tweets from June 2015 to November 2016 and footnotes which comprise 70-80% of the tweets which explain the context of each tweet. The book has a 100 page bibliography.

It is highly likely that Trump would not have been elected President were it not for social media. This is an unprecedented statement. This is the first time a presidential candidate utilized a social network to get his message out directly to voters, but moreover, to shape the media feedback loop. His tweets became news. This is primary source material on the 2016 election. No need for narratives, outside ”experts” or political ”science”.

The file is too large to post on this website. But you can download the book under this link:

https://www.dropbox.com/s/bxvsh7eqh2ueq6j/Trump%20Book.docx?dl=0

Keywords and phrases: 2016, book, Trump, election, social media.

Under Review Since : 2018-09-01

We propose the first economical theory of value that actually works. We explain evolutionary causes of trade, and demonstrate how goods have value from the evolutionary perspective, and how this value is increased with trade. This "Darwinian" value of goods exists before humans assign monetary value (or any other value estimate) to traded goods. We propose objective value estimate expressed in energy units.

Under Review Since : 2018-09-17

I make the distinction between *academic* probabilities, which are not rooted in reality and thus have no tangible real-world meaning, and *real* probabilities, which attain a real-world meaning as the odds that the subject asserting the probabilities is forced to accept for a bet against the stated outcome. With this I discuss how the replication crisis can be resolved easily by requiring that probabilities published in the scientific literature are real, instead of academic. At present, all probabilities and derivatives that appear in published work, such as P-values, Bayes factors, confidence intervals, etc., are the result of academic probabilities, which are not useful for making meaningful assertions about the real world.

Under Review Since : 2018-08-30

Under Review Since : 2018-08-28

Under Review Since : 2018-09-08

Whether the predictions put forth prior to the 2016 U.S. presidential election were right or wrong is a question that led to much debate. But rather than focusing on right or wrong, we analyze the 2016 predictions with respect to a core set of {\em effectiveness principles}, and conclude that they were ineffective in conveying the uncertainty behind their assessments. Along the way, we extract key insights that will help to avoid, in future elections, the systematic errors that lead to overly precise and overconfident predictions in 2016. Specifically, we highlight shortcomings of the classical interpretations of probability and its communication in the form of predictions, and present an alternative approach with two important features. First, our recommended predictions are safer in that they come with certain guarantees on the probability of an erroneous prediction; second, our approach easily and naturally reflects the (possibly substantial) uncertainty about the model by outputting *plausibilities* instead of *probabilities*.