A Suite of Packages for Analysis of Big Genomic Data
An umbrella package providing a phenotype/genotype data structure
and scalable and efficient computational methods for large genomic datasets
in combination with several other packages: 'BEDMatrix', 'LinkedMatrix',
and 'symDMatrix'.
c(
person("Gustavo", "de los Campos", email = "gustavoc@msu.edu", role = c("aut")),
person("Alexander", "Grueneberg", email = "alexander.grueneberg@googlemail.com", role = c("aut", "cre")),
person("Paulino", "Perez", email = "perpdgo@gmail.com", role = c("ctb")),
person("Ana", "Vazquez", email = "avazquez@epi.msu.edu", role = c("ctb")))
R (>= 3.0.0), BEDMatrix, LinkedMatrix, symDMatrix
Gustavo de los Campos [aut],
Alexander Grueneberg [aut, cre],
Paulino Perez [ctb],
Ana Vazquez [ctb]

methods, parallel, crochet (>= 2.1.0), bigmemory,
synchronicity, ff, bit
data.table (>= 1.9.6), lme4, SKAT, testthat, covr

c(
person("Gustavo", "de los Campos", email = "gustavoc@msu.edu", role = c("aut")),
person("Alexander", "Grueneberg", email = "cran@agrueneberg.info", role = c("aut", "cre")),
person("Paulino", "Perez", email = "perpdgo@gmail.com", role = c("ctb")),
person("Ana", "Vazquez", email = "avazquez@epi.msu.edu", role = c("ctb")))
data.table (>= 1.9.6), lme4, SKAT, testthat

Bayesian Genomic Linear Models Applied to GE Genome Selection
c(person("Italo", "Granato", email = "italo.granato@gmail.com", role = c("aut", "cre")),
person("Luna-Vázquez", "Francisco J.", email = "frahik@gmail.com ", role =c("aut")),
person("Cuevas", "Jaime", email = "jaicueva@uqroo.edu.mx", role =c("aut")))
Application of genome prediction for a continuous variable, focused
on genotype by environment (GE) genomic selection models (GS). It consists a group of functions
that help to create regression kernels for some GE genomic models proposed by Jarquín et al. (2014) <doi:10.1007/s00122-013-2243-1>
and Lopez-Cruz et al. (2015) <doi:10.1534/g3.114.016097>. Also, it computes genomic predictions based on Bayesian approaches.
The prediction function uses an orthogonal transformation of the data and specific priors
present by Cuevas et al. (2014) <doi:10.1534/g3.114.013094>.
Italo Granato [aut, cre],
Luna-Vázquez Francisco J. [aut],
Cuevas Jaime [aut]