Graphical models have demonstrated exceptional performance in uncovering the conditional dependence structure among a given set of variables. This paper introduces two novel graphical modeling techniques: Gslope and Tslope, which use the Sorted L1-Penalized Estimator (Slope) to directly estimate...

A common practice in protein sequence alignment is to try several scoring matrices until ``something interesting'' is found. This leads to a multiple testing problem making p- and E-values hard to interpret. We focus on local alignment and propose to use logistic copula functions to model...