mht.control

Parameter specification through function

As first reported [Zhao, J. H. 2007. "gap: Genetic Analysis Package". J Stat Soft 23(8):1-18.
<doi:10.18637/jss.v023.i08>], it is designed as an integrated package for genetic data
analysis of both population and family data. Currently, it contains functions for
sample size calculations of both population-based and family-based designs, probability
of familial disease aggregation, kinship calculation, statistics in linkage analysis,
and association analysis involving genetic markers including haplotype analysis with or
without environmental covariates. Over years, the package has been developed in-between
many projects hence also in line with the name (gap).

Jing Zhao

Genetic Analysis Package

Jing Hua Zhao

Kurt Hornik

Brian Ripley

Uwe Ligges

Achim Zeileis

mht.control function

<dl><dt>type</dt>
<dd>Type of plot.</dd>
<dt>usepos</dt>
<dd>A flag.</dd>
<dt>logscale</dt>
<dd>A flag for log-scale.</dd>
<dt>base</dt>
<dd>Base of log.</dd>
<dt>cutoffs</dt>
<dd>Cutoffs of P-value, etc.</dd>
<dt>colors</dt>
<dd>Colours for chromosomes.</dd>
<dt>labels</dt>
<dd>Labels for chromosomes.</dd>
<dt>srt</dt>
<dd>Rotation degrees.</dd>
<dt>gap</dt>
<dd>Gap between data points.</dd>
<dt>cex</dt>
<dd>Scaling factor of data points.</dd>
<dt>yline</dt>
<dd>Vertical adjustment.</dd>
<dt>xline</dt>
<dd>Horiztonal adjustment.</dd></dl>

Arguments

Controls for mhtplot — mht.control

<dl>

<dt>type</dt>
<dd>Type of plot.</dd>


<dt>usepos</dt>
<dd>A flag.</dd>


<dt>logscale</dt>
<dd>A flag for log-scale.</dd>


<dt>base</dt>
<dd>Base of log.</dd>


<dt>cutoffs</dt>
<dd>Cutoffs of P-value, etc.</dd>


<dt>colors</dt>
<dd>Colours for chromosomes.</dd>


<dt>labels</dt>
<dd>Labels for chromosomes.</dd>


<dt>srt</dt>
<dd>Rotation degrees.</dd>


<dt>gap</dt>
<dd>Gap between data points.</dd>


<dt>cex</dt>
<dd>Scaling factor of data points.</dd>


<dt>yline</dt>
<dd>Vertical adjustment.</dd>


<dt>xline</dt>
<dd>Horiztonal adjustment.</dd>

</dl>

mht.control: Controls for mhtplot

Description

Usage

Value

Arguments