Linkage map construction using the MSTmap algorithm
Julian Taylor <julian.taylor@adelaide.edu.au>, David Butler
<david.butler@daff.qld.gov.au>.
R (>= 2.0.0), qtl, gtools, fields, lattice
Functions for (A)ccurate and (S)peedy linkage map construction, manipulation and diagnosis of Doubled Haploid, Backcross and Recombinant Inbred R/qtl objects. This includes extremely fast linkage map clustering and optimal marker ordering using MSTmap (see Wu et al.,2008).

Linkage Map Construction using the MSTmap Algorithm

Functions for (A)ccurate and (S)peedy linkage map construction, manipulation and diagnosis of double haploid, backcross and and RIL R/qtl objects. This includes extremely fast linkage map clustering and optimal marker ordering using MSTmap (see Wu et al.,2008).

R (>= 2.10), qtl, gtools, fields, lattice
Functions for Accurate and Speedy linkage map construction, manipulation and diagnosis of Doubled Haploid, Backcross and Recombinant Inbred 'R/qtl' objects. This includes extremely fast linkage map clustering and optimal marker ordering using 'MSTmap' (see Wu et al.,2008).

R (>= 2.10), qtl, gtools, fields, RColorBrewer, lattice

Julian Taylor <julian.taylor@adelaide.edu.au>, David Butler
<dbutler@uow.edu.au>.

Bayesian Inference on Causal Genetic Variants using Affected
Sib-Pairs Data
This package allows to make inference on the properties of causal genetic
variants in linkage disequilibrium with genotyped markers. In a first step,
we select a subset of variants using a score statistic for affected
sib-pairs. In a second step, on the selected subset, we make
inference on causal genetic variants in the considered region.

c(
person('Salvador', 'Gezan', , 'salvador.gezan@vsni.co.uk', role = c('aut', 'cre')),
person('Darren', 'Murray', , 'darren.murray@vsni.co.uk', role = 'aut'),
person('Amanda', 'Avelar de Oliveira', , 'support@vsni.co.uk', role = 'aut'),
person('Giovanni', 'Galli', , 'giovanni.galli@vsni.co.uk', role = 'aut'),
person(given = 'VSN International', role = 'cph')
)
Presents a series of molecular and genetic routines in the R
environment with the aim of assisting in analytical pipelines before
and after the use of 'asreml' or another library to perform analyses such
as Genomic Selection or Genome-Wide Association Analyses.
Methods and examples are described in Gezan, Oliveira, Galli, and Murray (2022)
<https://asreml.kb.vsni.co.uk/wp-content/uploads/sites/3/ASRgenomics_Manual.pdf>.
AGHmatrix, cowplot, crayon, data.table, ellipse, factoextra,
ggplot2, Matrix, methods, scattermore, stats, superheat, utils
knitr, rmarkdown, spelling, testthat (>= 3.0.0)
Salvador Gezan [aut, cre],
Darren Murray [aut],
Amanda Avelar de Oliveira [aut],
Giovanni Galli [aut],
VSN International [cph]