annotate

An object of class <code>solarAssoc</code> or a character vector of SNPs.

A character with the mode of SNPs selection.
Possible values are <code>"significant"</code>, <code>"top"</code> and <code>"all"</code>.
The default value is <code>"significant"</code>.

mode

A numeric value from 0 to 1, the significance level after Bonferroni multiple-test correction.
Corresponds to <code>mode</code> equal to <code>"significant"</code>.

alpha

An integer value, the number of top SNPs to be annotated.
Corresponds to <code>mode</code> equal to <code>"top"</code>.
The default value is 10.

num.top

Additional arguments passed to <code>annotateSNPs</code>.


The function calls <code><a rd-options="" href="/link/annotateSNPs?package=solarius&version=0.3.0.2" data-mini-rdoc="solarius::annotateSNPs">annotateSNPs</a></code> function,
which does the job.


SOLAR is the standard software program to perform linkage and
association mappings of the quantitative trait loci (QTLs) in pedigrees of
arbitrary size and complexity. This package allows the user to exploit the
variance component methods implemented in SOLAR. It automates such routine
operations as formatting pedigree and phenotype data. It also parses the model
output and contains summary and plotting functions for exploration of the
results. In addition, solarius enables parallel computing of the linkage and
association analyses, that makes the calculation of genome-wide scans more
efficient. See <http://solar.txbiomedgenetics.org/> for more information about
SOLAR.

annotate: Annotate SNPs in association study

Description

Usage

Arguments

Value

See Also