Elias Chaibub Neto <echaibub@hotmail.com> and Brian S. yandell
<yandell@stat.wisc.edu>
Functions to Simultaneously Infer Causal Graphs and
Genetic Architecture
R (>= 2.10), qtl, igraph, sem, graph, pcalg

Elias Chaibub Neto <echaibub@hotmail.com> and Brian S. yandell
<byandell@wisc.edu>

Elias Chaibub Neto <echaibub@hotmail.com> and Brian S. yandell <byandell@wisc.edu>
Functions to Simultaneously Infer Causal Graphs and Genetic Architecture

Elias Chaibub Neto <echaibub@hotmail.com> and Brian S. yandell <brian.yandell@wisc.edu>
Functions to Simultaneously Infer Causal Graphs and Genetic Architecture.
Includes acyclic and cyclic graphs for data from an experimental cross with a modest number (<10) of phenotypes driven by
a few genetic loci (QTL).
Chaibub Neto E, Keller MP, Attie AD, Yandell BS (2010)
Causal Graphical Models in Systems Genetics: a unified framework for joint inference of causal network and genetic architecture for correlated phenotypes.
Annals of Applied Statistics 4: 320-339.
<doi:10.1214/09-AOAS288>.

Random-Effect Multiple QTL Mapping in Autopolyploids
c(person(given = "Guilhereme",
family = "da Silva Pereira",
role = "aut",
email = "gdasilv@ncsu.edu",
comment = c(ORCID="0000-0002-7106-8630")),
person(given = "Marcelo",
family = "Mollinari",
role = "ctb",
email = "mmollin@ncsu.edu",
comment = c(ORCID="0000-0002-7001-8498")),
person(given = "Gabriel",
family = "de Siqueira Gesteira",
role = c("ctb","cre"),
email = "gdesiqu@ncsu.edu",
comment = c(ORCID="0000-0002-4106-7346")),
person(given = "Zhao-Bang",
family = "Zeng",
role = "ctb",
email = "szeng@ncsu.edu",
comment = c(ORCID="0000-0002-3115-1149")),
person(given = "Long",
family = "Qu",
role = "ctb",
email = "rtistician@gmail.com",
comment = "C code for variance component tests using score statistics in R/varComp.R"),
person(given = "Giovanny",
family = "Covarrubias-Pazaran",
role = "ctb",
email = "cova_ruber@live.com.mx",
comment = "C code for fitting mixed models with REML estimation in src/MNR.cpp")
)
Gabriel de Siqueira Gesteira <gdesiqu@ncsu.edu>
Performs random-effect multiple interval mapping (REMIM) in full-sib families of autopolyploid species based on restricted maximum likelihood (REML) estimation and score statistics, as described in Pereira et al. (2020) <doi:10.1534/genetics.120.303080>.
ggplot2 (>= 3.1), abind (>= 1.4), MASS (>= 7.3), gtools (>=
3.9.2), CompQuadForm, Matrix, RLRsim, mvtnorm, nlme, quadprog,
parallel, stats, methods, Rcpp (>= 0.12.19)
Guilhereme da Silva Pereira [aut]
(<https://orcid.org/0000-0002-7106-8630>),
Marcelo Mollinari [ctb] (<https://orcid.org/0000-0002-7001-8498>),
Gabriel de Siqueira Gesteira [ctb, cre]
(<https://orcid.org/0000-0002-4106-7346>),
Zhao-Bang Zeng [ctb] (<https://orcid.org/0000-0002-3115-1149>),
Long Qu [ctb] (C code for variance component tests using score
statistics in R/varComp.R),
Giovanny Covarrubias-Pazaran [ctb] (C code for fitting mixed models
with REML estimation in src/MNR.cpp)