Title: A comprehensive modeling framework for epidemiological outcomes
and a simulation-based approach to haplotypic analysis of
Description: SimHap is a package for genetic association testing. It
can perform single SNP and multi-locus (haplotype) association
analyses for continuous Normal, binary, longitudinal and
right-censored outcomes measured in population-based samples.
SimHap uses estimation maximisation techniques for inferring
haplotypic phase in individuals, and incorporates a novel
simulation-based approach to deal with the uncertainty of
imputed haplotypes in association testing.

Title: Simulated Survival and Hazard Analysis for Time-Dependent
Author: Danyi Xiong, Teeranan Pokaprakarn, Hiroto Udagawa, Nusrat Rabbee
Description: Generate power for the Cox proportional hazards model by simulating survival events data with time dependent exposure status for subjects. A dichotomous exposure variable is considered with a single transition from unexposed to exposed status during the subject's time on study.

Title: A Framework for Stochastic Disease Spread Simulations
Author: Stefan Widgren (National Veterinary Institute, Sweden),
Pavol Bauer (Uppsala University, Sweden),
Stefan Engblom (Uppsala University, Sweden)
Description: Livestock movements are important for the spread of many
infectious diseases between herds. The package provides an
efficient and flexible framework for stochastic disease spread
modelling that integrates within-herd disease dynamics as
continuous-time Markov chains and livestock movements between
herds as scheduled events. The core simulation solver is
implemented in C and uses 'OpenMP' (if available) to divide work
over multiple processors. The package contains template models and
can be extended with user defined models.
Acknowledgements: This work was financially supported by the Swedish
Research Council within the UPMARC Linnaeus center of
Excellence (Pavol Bauer and Stefan Engblom).

Title: A Framework for Data-Driven Stochastic Disease Spread
Excellence (Pavol Bauer and Stefan Engblom), The Swedish
Research Council Formas (Stefan Engblom and Stefan Widgren),
and The Swedish Board of Agriculture (Stefan Widgren).
'siminf_model.R' 'SISe.R' 'SISe3.R' 'SISe3_sp.R' 'SISe_sp.R'