Package: neuRosim
Type: Package
Title: Functions to Generate fMRI Data Including Activated Data, Noise
Data and Resting State Data
Version: 0.2-12
Date: 2015-01-09
Author: Marijke Welvaert with contributions from Joke Durnez, Beatrijs
Moerkerke, Yves Rosseel and Geert Verdoolaege
Maintainer: Marijke Welvaert <marijke.welvaert@gmail.com>
Depends: R (>= 3.1.1), deSolve
Description: The package allows users to generate fMRI time series or 4D data. Some high-level functions are created for fast data generation with only a few arguments and a diversity of functions to define activation and noise. For more advanced users it is possible to use the low-level functions and manipulate the arguments.
License: GPL (>= 2)
LazyLoad: yes
Repository: CRAN
Date/Publication: 2015-01-10 10:01:21
Packaged: 2015-01-09 00:52:20 UTC; wel18s
NeedsCompilation: yes
Package: DDD
Type: Package
Title: Diversity-Dependent Diversification
Version: 3.2
Date: 2016-2-5
Depends: R (>= 3.0.2), deSolve, ape, ade4
Imports: phytools, subplex, Matrix, expoRkit, SparseM
Author: Rampal S. Etienne & Bart Haegeman
Maintainer: Rampal S. Etienne <r.s.etienne@rug.nl>
License: GPL-3
Description:
Implements maximum likelihood methods based on the diversity-dependent birth-death process to test whether speciation or extinction are diversity-dependent.
See Etienne et al. 2012, Proc. Roy. Soc. B 279: 1300-1309, <DOI:10.1098/rspb.2011.1439>.
Also implements maximum likelihood methods to detect various types of key innovations in the light of diversity-dependence.
See Etienne & Haegeman 2012, Am. Nat. 180: E75-E89, <DOI:10.1086/667574>.
Finally, DDD contains a function to simulate the diversity-dependent process.
NeedsCompilation: no
Packaged: 2016-02-09 08:59:36 UTC; rampa
Repository: CRAN
Date/Publication: 2016-02-09 10:24:37
Package: DivE
Type: Package
Title: Diversity Estimator
Version: 1.0
Date: 2014-04-01
Author: Daniel Laydon, Aaron Sim, Charles Bangham, Becca Asquith
Maintainer: Daniel Laydon <d.laydon@imperial.ac.uk>
Depends: deSolve, FME, rgeos, sp, R (>= 2.15.3)
Description: R-package DivE contains functions for the DivE estimator (Laydon, D. et al., Quantification of HTLV-1 clonality and TCR diversity, PLOS Comput. Biol. 2014). The DivE estimator is a heuristic approach to estimate the number of classes or the number of species (species richness) in a population.
License: GPL (>= 2)
LazyData: TRUE
Packaged: 2014-04-14 12:24:21 UTC; aaronsim
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-04-14 19:07:04
Package: PSM
Type: Package
Title: Non-Linear Mixed-Effects modelling using Stochastic Differential
Equations.
Version: 0.8-10
Date: 2013-09-10
Encoding: latin1
Author: Stig Bousgaard Mortensen <stigbm@gmail.com> and Søren Klim
<soren@klimens.dk>
Maintainer: Stig Bousgaard Mortensen <stigbm@gmail.com>
Depends: MASS, numDeriv, deSolve, ucminf
Description: This package provides functions for estimation of linear
and non-linear mixed-effects models using stochastic
differential equations. Moreover it provides functions for
finding smoothed estimates of model states and for simulation.
The package allows for any multivariate non-linear time-variant
model to be specified, and it also handles multidimensional
input, co-variates, missing observations and specification of
dosage regimen.
License: GPL (>= 2)
URL: http://www.imm.dtu.dk/psm
Packaged: 2013-09-10 17:50:40 UTC; sbm
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2013-09-10 20:16:22
Package: TDCor
Type: Package
Title: Gene Network Inference from Time-Series Transcriptomic Data
Version: 0.1-2
Date: 2015-10-05
Author: Julien Lavenus
Maintainer: Mikael Lucas <mikael.lucas@ird.fr>
Imports: parallel
Depends: R (>= 3.1.2), deSolve
Description: The Time-Delay Correlation algorithm (TDCor) reconstructs the topology of a gene regulatory network (GRN) from time-series transcriptomic data. The algorithm is described in details in Lavenus et al., Plant Cell, 2015. It was initially developed to infer the topology of the GRN controlling lateral root formation in Arabidopsis thaliana. The time-series transcriptomic dataset which was used in this study is included in the package to illustrate how to use it.
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2015-10-05 10:11:17.744 UTC; root
Repository: CRAN
Date/Publication: 2015-10-26 15:58:36
Package: expoTree
Type: Package
Title: Calculate density dependent likelihood of a phylogenetic tree
Version: 1.0.1
Date: 2013-09-03
Author: Gabriel E Leventhal, partly adapted from MATLAB code by Awad H. Al-Mohy and using the routines DLNAC1 and DLARPC by Sheung Hun Cheng, and DLAPST from ScaLAPACK.
Maintainer: Gabriel E Leventhal <gabriel@leventhal.ch>
Depends: R (>= 2.12.0), ape, deSolve
Description: Calculates the density dependent likelihood of a phylogenetic tree. It takes branching and sampling times as an argument and integrates the likelihood function over the whole tree.
License: BSD_3_clause + file LICENCE
Packaged: 2013-09-03 12:01:29 UTC; gabriel
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2013-09-03 14:12:55
Package: ecolMod
Version: 1.2.6
Date: 2014-12-24
Title: "A practical guide to ecological modelling - using R as a
simulation platform"
Author: Karline Soetaert <karline.soetaert@nioz.nl>, Peter MJ Herman <peter.herman@nioz.nl>
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>
Depends: R (>= 2.01), rootSolve, shape, diagram, deSolve
Suggests: maps, seacarb, scatterplot3d, deldir
Description: Figures, data sets and examples from the book "A practical guide to ecological modelling - using R as a simulation platform" by Karline Soetaert and Peter MJ Herman (2009). Springer.
All figures from chapter x can be generated by "demo(chapx)", where x = 1 to 11.
The R-scripts of the model examples discussed in the book are in subdirectory "examples", ordered per chapter.
Solutions to model projects are in the same subdirectories.
License: GPL (>= 2)
LazyData: yes
Packaged: 2014-12-26 08:45:37 UTC; rforge
Repository: CRAN
Repository/R-Forge/Project: diagram
Repository/R-Forge/Revision: 73
Repository/R-Forge/DateTimeStamp: 2014-12-26 08:36:38
Date/Publication: 2014-12-29 18:15:39
NeedsCompilation: yes
providing 
.