readMapFile

character, path to input file containing genomic
map data, e.g. a Plink
<a href="http://pngu.mgh.harvard.edu/~purcell/plink/data.shtml#map"><code>.map</code></a>,
<a href="http://pngu.mgh.harvard.edu/~purcell/plink/data.shtml#tr"><code>.bim</code></a>
or <a href="http://pngu.mgh.harvard.edu/~purcell/plink/data.shtml#bed"><code>.tped</code></a> file.

filename

logical, indicate whether input file contains column with
genetic distance between SNPs (in which case the bp positions are
in the fourth column)

morgans


These files have (at least) the following columns (separated by
white space):
<ul>
<li> column 1: chromosome
</li>
<li> column 2: variant name
</li>
<li> column 3: genetic distance in morgans (optional, see the
<code>morgans</code> option)
</li>
<li> column 4: base-pair position (bp units)
</li>
</ul><p></p><p></p>

This is a collection of the five region-based
rare-variant genetic association tests. The following tests are
currently implemented: ASKAT, ASKAT-Normalized, VC-C1, VC-C2 and
VC-C3.

readMapFile: Read file with information about SNPs chromosome and position, for example from regular PLINK .map OR .bim file

Description

Usage

Arguments

Value

See Also