Simulates stochastic hybrid models for transmission of infectious
diseases in dynamic networks.

doParallel, doRNG, foreach, ggplot2, GillespieSSA, parallel,
reshape2, stats, stringr, grid

An R Package for the Stochastic Simulation of Disease Spreading
in Dynamic Networks
Simulates stochastic hybrid models for transmission of infectious
diseases in dynamic networks. It is a metapopulation model in which each
node in the network is a sub-population and disease spreads within nodes
and among them, combining two approaches: stochastic simulation algorithm
(<doi:10.1146/annurev.physchem.58.032806.104637>) and individual-based
approach, respectively. Equations that models spread within nodes are
customizable and there are two link types among nodes: migration and
influence (commuting). More information in Fernando S. Marques,
Jose H. H. Grisi-Filho, Marcos Amaku et al. (2020) <doi:10.18637/jss.v094.i06>.

Function that Creates a Heat Map from Hybridization Data
Using hybrid data, this package created a vividly colored hybrid heat map.
The input is two files which are auto-selected.
The first file has three columns, the first two for pairs of species,
with the third column for the hybrid experiment code (an integer).
The second file is a list of code and their descriptions in two
columns. The output is a figure showing the hybrid heat map with a color legend.

Calculate an optimal embedding of a set of data points into low-dimensional hyperbolic space. This uses the strain-minimizing hyperbolic embedding of Keller-Ressel and Nargang (2019), see <arXiv:1903.08977>.

Functions for basic hydraulic calculations related to
water flow in circular pipes flowing full (under pressure). This
includes friction loss calculations by solving the Darcy-Weisbach
equation for head loss, flow or diameter, and plotting a Moody diagram.
The Darcy-Weisbach friction factor is calculated using the Colebrook (or
Colebrook-White equation), the basis of the Moody diagram, the original
citation being Colebrook (1939) <doi:10.1680/ijoti.1939.13150>. The
derivation of the Darcy-Weisbach equation and methods for its solution
are outlined in many fluid mechanics texts such as Finnemore and Franzini
(2002, ISBN:978-0072432022). This package is designed to work similarly
to the 'iemisc' package, but with an emphasis on pipe flow.