Switching codes and designs

AbstractVarious local transformations of combinatorial structures (codes, designs, and related structures) that leave the basic parameters unaltered are here unified under the principle of switching. The purpose of the study is threefold: presentation of the switching principle, unification of earlier results (including a new result for covering codes), and applying switching exhaustively to some common structures with small parameters

Uniformity in association schemes and coherent configurations: cometric Q-antipodal schemes and linked systems

Inspired by some intriguing examples, we study uniform association schemes and uniform coherent configurations, including cometric Q-antipodal association schemes. After a review of imprimitivity, we show that an imprimitive association scheme is uniform if and only if it is dismantlable, and we cast these schemes in the broader context of certain --- uniform --- coherent configurations. We also give a third characterization of uniform schemes in terms of the Krein parameters, and derive information on the primitive idempotents of such a scheme. In the second half of the paper, we apply these results to cometric association schemes. We show that each such scheme is uniform if and only if it is Q-antipodal, and derive results on the parameters of the subschemes and dismantled schemes of cometric Q-antipodal schemes. We revisit the correspondence between uniform indecomposable three-class schemes and linked systems of symmetric designs, and show that these are cometric Q-antipodal. We obtain a characterization of cometric Q-antipodal four-class schemes in terms of only a few parameters, and show that any strongly regular graph with a ("non-exceptional") strongly regular decomposition gives rise to such a scheme. Hemisystems in generalized quadrangles provide interesting examples of such decompositions. We finish with a short discussion of five-class schemes as well as a list of all feasible parameter sets for cometric Q-antipodal four-class schemes with at most six fibres and fibre size at most 2000, and describe the known examples. Most of these examples are related to groups, codes, and geometries.Comment: 42 pages, 1 figure, 1 table. Published version, minor revisions, April 201

Distance-regular graphs

This is a survey of distance-regular graphs. We present an introduction to distance-regular graphs for the reader who is unfamiliar with the subject, and then give an overview of some developments in the area of distance-regular graphs since the monograph 'BCN' [Brouwer, A.E., Cohen, A.M., Neumaier, A., Distance-Regular Graphs, Springer-Verlag, Berlin, 1989] was written.Comment: 156 page

Compressed Genotyping

Significant volumes of knowledge have been accumulated in recent years linking subtle genetic variations to a wide variety of medical disorders from Cystic Fibrosis to mental retardation. Nevertheless, there are still great challenges in applying this knowledge routinely in the clinic, largely due to the relatively tedious and expensive process of DNA sequencing. Since the genetic polymorphisms that underlie these disorders are relatively rare in the human population, the presence or absence of a disease-linked polymorphism can be thought of as a sparse signal. Using methods and ideas from compressed sensing and group testing, we have developed a cost-effective genotyping protocol. In particular, we have adapted our scheme to a recently developed class of high throughput DNA sequencing technologies, and assembled a mathematical framework that has some important distinctions from 'traditional' compressed sensing ideas in order to address different biological and technical constraints.Comment: Submitted to IEEE Transaction on Information Theory - Special Issue on Molecular Biology and Neuroscienc