Related papers: Defining Pathway Assembly and Exploring its Applic…
We describe some of the important physical characteristics of the `pathways', i.e. dynamical processes, by which molecular, nanoscale and micron-scale self-assembly occurs. We highlight the fact that there exist features of self-assembly…
Most existing 3D assembly methods treat the problem as pure pose estimation, rearranging observed parts via rigid transformations. In contrast, human assembly naturally couples structural reasoning with holistic shape inference. Inspired by…
The number of species can be estimated by sampling individuals from a species assemblage. The problem of estimating generalized species accumulation curve is addressed in a nonparametric Poisson mixture model. A likelihood-based estimator…
Assembly theory (AT) introduces causation as a material property and establishes a metrology for objects produced by evolution and selection. The physical scale of causation is quantified by the assembly index, defined as the minimum number…
In resolving instances of a computational problem, if multiple instances of interest share a feature in common, it may be fruitful to compile this feature into a format that allows for more efficient resolution, even if the compilation is…
The problem of searching for a model-based scene interpretation is analyzed within a probabilistic framework. Object models are formulated as generative models for range data of the scene. A new statistical criterion, the truncated object…
This paper develops a planner to find an optimal assembly sequence to assemble several objects. The input to the planner is the mesh models of the objects, the relative poses between the objects in the assembly, and the final pose of the…
Graphs are used to represent and analyze data in domains as diverse as physics, biology, chemistry, planetary science, and the social sciences. Across domains, random graph models relate generative processes to expected graph properties,…
Assembly Theory (AT) was developed to help distinguish living from non-living systems. The theory is simple as it posits that the amount of selection or Assembly is a function of the number of complex objects where their complexity can be…
Many random combinatorial objects have a component structure whose joint distribution is equal to that of a process of mutually independent random variables, conditioned on the value of a weighted sum of the variables. It is interesting to…
Assembly theory predicts that a distinguishing signature of life is its ability to produce complex molecules in abundance, opening new possibilities for life detection. Experimental validation of this approach has so far relied on abiotic…
The tolerancing process links the virtual and the real worlds. From the former, tolerances define a variational geometrical language (geometric parameters). From the latter, there are values limiting those parameters. The beginning of a…
A key overall goal of biomolecular simulations is the characterization of "mechanism" -- the pathways through configuration space of processes such as conformational transitions and binding. Some amount of heterogeneity is intrinsic to the…
A composite likelihood is a combination of low-dimensional likelihood objects useful in applications where the data have complex structure. Although composite likelihood construction is a crucial aspect influencing both computing and…
Galaxy formation, viewed as an inference problem from incomplete information, is inherently stochastic. Reducing the full simulation state to a coarse-grained set of variables integrates out unresolved degrees of freedom, motivating an…
We study a type of object, called a pathway (generalizing pathways in the sense of P. E. Cohen [Proc. Amer. Math. Soc. 74, No. 2 (1979), 318--321]), which is useful for several set-theoretic constructions and whose existence, in a sense,…
Graph aggregation is the process of computing a single output graph that constitutes a good compromise between several input graphs, each provided by a different source. One needs to perform graph aggregation in a wide variety of…
We formulate genome assembly problem as an optimization problem in which the objective function is the likelihood of the assembly given the reads.
A common approach to aggregate classification estimates in an ensemble of decision trees is to either use voting or to average the probabilities for each class. The latter takes uncertainty into account, but not the reliability of the…
To study gap acceptance behaviour one needs the distribution (or probability density function) of gaps in the opposing stream. Further, in these times of widespread availability of large computing powers, traffic simulation has emerged as a…