Title: Optimal Block Designs for Two-Colour cDNA Microarray Experiments
Depends: R (>= 3.3.1), MASS, Matrix, igraph, tcltk
Description: Computes A-, MV-, D- and E-optimal or near-optimal block designs for two-colour cDNA microarray experiments using the linear fixed effects and mixed effects models where the interest is in a comparison of all possible elementary treatment contrasts. The algorithms used in this package are based on the treatment exchange and array exchange algorithms of Debusho, Gemechu and Haines (2016, unpublished). The package also provides an optional method of using the graphical user interface (GUI) R package tcltk to ensure that it is user friendly.
Packaged: 2017-02-09 07:59:16 UTC; Dibaba B Gemechu

Copyright: Primordial Machine Vision Systems, Inc.
Description: Defines thresholds for breaking data into a number of
discrete levels, minimizing the (mean) squared error within all bins.

Title: Calculating Optimal and D-Augmented Designs
Description: Calculates D-, Ds-, A- and I-optimal designs for non-linear models, via an implementation of the cocktail algorithm (Yu, 2011, <doi:10.1007/s11222-010-9183-2>). Compares designs via their efficiency, and D-augments any design with a controlled efficiency. An efficient rounding function has been provided to transform approximate designs to exact designs.
Suggests: testthat (>= 3.0.0), mockery, markdown, tidyverse
Imports: ggplot2, purrr, rlang, crayon, cli, magrittr, dplyr, nleqslv,
shiny, DT, shinydashboard, shinyalert, plotly, hrbrthemes,
Packaged: 2021-11-30 09:11:59 UTC; Carlos.CalleArroyo
Author: Carlos de la Calle-Arroyo [aut, cre]
Maintainer: Carlos de la Calle-Arroyo <carlos.calle.arroyo@gmail.com>

Packaged: 2022-01-20 09:07:17 UTC; Carlos.CalleArroyo

Suggests: testthat (>= 3.0.0), mockery, markdown, tidyverse, DT,
shinydashboard, shinyalert, plotly, hrbrthemes, shinyjs,
Imports: ggplot2, purrr, rlang, crayon, cli, dplyr, nleqslv, shiny,
Packaged: 2022-11-18 15:52:27 UTC; cdelacallea

Package: optextras
Version: 2013-10.27
Date: 2013-10-27
Title: A set of tools to support optimization methods (function
minimization with at most bounds and masks).
Authors@R: c( person(given = c("John", "C."), family = "Nash", role =
c("aut", "cre"), email = "nashjc@uottawa.ca") )
Maintainer: John C. Nash <nashjc@uottawa.ca>
Description: Tools to assist in safely applying user generated objective and
derivative function to optimization programs. These are primarily function
minimization methods with at most bounds and masks on the parameters.
Provides a way to check the basic computation of objective functions that
the user provides, along with proposed gradient and Hessian functions,
as well as to wrap such functions to avoid failures when inadmissible parameters
are provided. Check bounds and masks. Check scaling or optimality conditions.
Perform an axial search to seek lower points on the objective function surface.
Includes forward, central and backward gradient approximation codes.
License: GPL-2
Depends: numDeriv
Packaged: 2013-11-08 17:06:25 UTC; john
Author: John C. Nash [aut, cre]
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2013-11-08 22:41:12