2,519 research outputs found
A colimit decomposition for homotopy algebras in Cat
Badzioch showed that in the category of simplicial sets each homotopy algebra
of a Lawvere theory is weakly equivalent to a strict algebra. In seeking to
extend this result to other contexts Rosicky observed a key point to be that
each homotopy colimit in simplicial sets admits a decomposition into a homotopy
sifted colimit of finite coproducts, and asked the author whether a similar
decomposition holds in the 2-category of categories Cat. Our purpose in the
present paper is to show that this is the case.Comment: Some notation changed; small amount of exposition added in intr
The Drosophila genome nexus: a population genomic resource of 623 Drosophila melanogaster genomes, including 197 from a single ancestral range population.
Hundreds of wild-derived Drosophila melanogaster genomes have been published, but rigorous comparisons across data sets are precluded by differences in alignment methodology. The most common approach to reference-based genome assembly is a single round of alignment followed by quality filtering and variant detection. We evaluated variations and extensions of this approach and settled on an assembly strategy that utilizes two alignment programs and incorporates both substitutions and short indels to construct an updated reference for a second round of mapping prior to final variant detection. Utilizing this approach, we reassembled published D. melanogaster population genomic data sets and added unpublished genomes from several sub-Saharan populations. Most notably, we present aligned data from phase 3 of the Drosophila Population Genomics Project (DPGP3), which provides 197 genomes from a single ancestral range population of D. melanogaster (from Zambia). The large sample size, high genetic diversity, and potentially simpler demographic history of the DPGP3 sample will make this a highly valuable resource for fundamental population genetic research. The complete set of assemblies described here, termed the Drosophila Genome Nexus, presently comprises 623 consistently aligned genomes and is publicly available in multiple formats with supporting documentation and bioinformatic tools. This resource will greatly facilitate population genomic analysis in this model species by reducing the methodological differences between data sets
Environment and classical channels in categorical quantum mechanics
We present a both simple and comprehensive graphical calculus for quantum
computing. In particular, we axiomatize the notion of an environment, which
together with the earlier introduced axiomatic notion of classical structure
enables us to define classical channels, quantum measurements and classical
control. If we moreover adjoin the earlier introduced axiomatic notion of
complementarity, we obtain sufficient structural power for constructive
representation and correctness derivation of typical quantum informatic
protocols.Comment: 26 pages, many pics; this third version has substantially more
explanations than previous ones; Journal reference is of short 14 page
version; Proceedings of the 19th EACSL Annual Conference on Computer Science
Logic (CSL), Lecture Notes in Computer Science 6247, Springer-Verlag (2010
Three qubit entanglement within graphical Z/X-calculus
The compositional techniques of categorical quantum mechanics are applied to
analyse 3-qubit quantum entanglement. In particular the graphical calculus of
complementary observables and corresponding phases due to Duncan and one of the
authors is used to construct representative members of the two genuinely
tripartite SLOCC classes of 3-qubit entangled states, GHZ and W. This nicely
illustrates the respectively pairwise and global tripartite entanglement found
in the W- and GHZ-class states. A new concept of supplementarity allows us to
characterise inhabitants of the W class within the abstract diagrammatic
calculus; these method extends to more general multipartite qubit states.Comment: In Proceedings HPC 2010, arXiv:1103.226
Quantum Picturalism
The quantum mechanical formalism doesn't support our intuition, nor does it
elucidate the key concepts that govern the behaviour of the entities that are
subject to the laws of quantum physics. The arrays of complex numbers are kin
to the arrays of 0s and 1s of the early days of computer programming practice.
In this review we present steps towards a diagrammatic `high-level' alternative
for the Hilbert space formalism, one which appeals to our intuition. It allows
for intuitive reasoning about interacting quantum systems, and trivialises many
otherwise involved and tedious computations. It clearly exposes limitations
such as the no-cloning theorem, and phenomena such as quantum teleportation. As
a logic, it supports `automation'. It allows for a wider variety of underlying
theories, and can be easily modified, having the potential to provide the
required step-stone towards a deeper conceptual understanding of quantum
theory, as well as its unification with other physical theories. Specific
applications discussed here are purely diagrammatic proofs of several quantum
computational schemes, as well as an analysis of the structural origin of
quantum non-locality. The underlying mathematical foundation of this high-level
diagrammatic formalism relies on so-called monoidal categories, a product of a
fairly recent development in mathematics. These monoidal categories do not only
provide a natural foundation for physical theories, but also for proof theory,
logic, programming languages, biology, cooking, ... The challenge is to
discover the necessary additional pieces of structure that allow us to predict
genuine quantum phenomena.Comment: Commissioned paper for Contemporary Physics, 31 pages, 84 pictures,
some colo
The GHZ/W-calculus contains rational arithmetic
Graphical calculi for representing interacting quantum systems serve a number
of purposes: compositionally, intuitive graphical reasoning, and a logical
underpinning for automation. The power of these calculi stems from the fact
that they embody generalized symmetries of the structure of quantum operations,
which, for example, stretch well beyond the Choi-Jamiolkowski isomorphism. One
such calculus takes the GHZ and W states as its basic generators. Here we show
that this language allows one to encode standard rational calculus, with the
GHZ state as multiplication, the W state as addition, the Pauli X gate as
multiplicative inversion, and the Pauli Z gate as additive inversion.Comment: In Proceedings HPC 2010, arXiv:1103.226
Generalised Compositional Theories and Diagrammatic Reasoning
This chapter provides an introduction to the use of diagrammatic language, or
perhaps more accurately, diagrammatic calculus, in quantum information and
quantum foundations. We illustrate the use of diagrammatic calculus in one
particular case, namely the study of complementarity and non-locality, two
fundamental concepts of quantum theory whose relationship we explore in later
part of this chapter.
The diagrammatic calculus that we are concerned with here is not merely an
illustrative tool, but it has both (i) a conceptual physical backbone, which
allows it to act as a foundation for diverse physical theories, and (ii) a
genuine mathematical underpinning, permitting one to relate it to standard
mathematical structures.Comment: To appear as a Springer book chapter chapter, edited by G.
Chirabella, R. Spekken
Picturing classical and quantum Bayesian inference
We introduce a graphical framework for Bayesian inference that is
sufficiently general to accommodate not just the standard case but also recent
proposals for a theory of quantum Bayesian inference wherein one considers
density operators rather than probability distributions as representative of
degrees of belief. The diagrammatic framework is stated in the graphical
language of symmetric monoidal categories and of compact structures and
Frobenius structures therein, in which Bayesian inversion boils down to
transposition with respect to an appropriate compact structure. We characterize
classical Bayesian inference in terms of a graphical property and demonstrate
that our approach eliminates some purely conventional elements that appear in
common representations thereof, such as whether degrees of belief are
represented by probabilities or entropic quantities. We also introduce a
quantum-like calculus wherein the Frobenius structure is noncommutative and
show that it can accommodate Leifer's calculus of `conditional density
operators'. The notion of conditional independence is also generalized to our
graphical setting and we make some preliminary connections to the theory of
Bayesian networks. Finally, we demonstrate how to construct a graphical
Bayesian calculus within any dagger compact category.Comment: 38 pages, lots of picture
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