Depends: R (>= 2.14), lattice, coda, igraph, graph
Description: DDEPN (Dynamic Deterministic Effects Propagation Networks): Infer signalling networks for timecourse data. Given a matrix of high-throughput genomic or proteomic timecourse data, generated after external perturbation of the biological system, DDEPN models the time-dependent propagation of active and passive states depending on a network structure. Optimal network structures given the experimental data are reconstructed. Two network inference algorithms can be used: inhibMCMC, a Markov Chain Monte Carlo sampling approach and GA, a Genetic Algorithm network optimisation. Inclusion of prior biological knowledge can be done using different network prior models.

Jon T. Schnute <SchnuteJ@pac.dfo-mpo.gc.ca>, and
by interfacing numerical routines written by Simon N. Wood.
These numerical routines first appeared in Simon Wood's solv95 program.
Packaged: Sun May  6 10:59:05 2007; Alex

Packaged: Tue Jul 17 16:04:38 2007; haighr

Packaged: Mon Oct  1 22:16:08 2007; Alex

Packaged: Thu Apr 17 09:14:46 2008; alex

Description: ***** This package is DEPRECATED. ***** Download the
package 'PBSddesolve' to solve systems of delay differential
equations using numerical routines written by Simon N. Wood
<s.wood _at_ bath.ac.uk>, with contributions by Benjamin J.
Cairns <ben.cairns@bristol.ac.uk>. These numerical routines
first appeared in Simon Wood's solv95 program.

Title: The Data Defect Index for Samples that May not be IID
Description: Implements Meng's data defect index (ddi), which represents
the degree of sample bias relative to an iid sample. The data defect
correlation (ddc) represents the correlation between the outcome of interest
and the selection into the sample; when the sample selection is independent
across the population, the ddc is zero. Details are in Meng (2018)
<doi:10.1214/18-AOAS1161SF>, "Statistical Paradises and Paradoxes in Big Data (I):
Law of Large Populations, Big Data Paradox, and the 2016 US Presidential
Election." Survey estimates from the Cooperative Congressional Election Study
(CCES) is included to replicate the article's results.
Suggests: testthat (>= 2.1.0), dplyr, tibble
Packaged: 2020-01-19 18:19:38 UTC; shirokuriwaki
Author: Shiro Kuriwaki [aut, cre] (<https://orcid.org/0000-0002-5687-2647>)