aa.prop.list

Implements several methods for testing the variance component parameter in regression models that contain kernel-based random effects, including a maximum of adjusted scores test. Several kernels are supported, including a profile hidden Markov model mutual information kernel for protein sequence. This package is described in Fong et al. (2015) <DOI:10.1093/biostatistics/kxu056>.

Youyi Fong

Kernel Based Regression Models

Saheli Datta

Krisztian Sebestyen

Steve Park

Dave Geyer

aa.prop.list function

A data frame with 20 observations on the following 13 variables.<dl>
 <dt><code>Symbol</code></dt>
<dd>a chacracter vector with 20 values: A through Y</dd> <dt><code>AA_Name</code></dt>
<dd>a chacracter vector with 20 values: Alanine through Tyrosine</dd> <dt><code>AA_Symbol</code></dt>
<dd>a chacracter vector with 20 values: Ala through Tyr</dd> <dt><code>Surface_Area_Chothia</code></dt>
<dd>a numeric vector</dd> <dt><code>Residue_Volume_Zamayatin</code></dt>
<dd>a numeric vector</dd> <dt><code>Bulkiness_Jones</code></dt>
<dd>a numeric vector</dd> <dt><code>Polarity_Jones</code></dt>
<dd>a numeric vector</dd> <dt><code>Refractivity_Jones</code></dt>
<dd>a numeric vector</dd> <dt><code>Hydrophobicity_Engleman</code></dt>
<dd>a numeric vector</dd> <dt><code>Hydrophobicity_Prabha</code></dt>
<dd>a numeric vector</dd> <dt><code>Hydrophilicity_Hopp</code></dt>
<dd>a numeric vector</dd> <dt><code>Hydrophilicity_Levitt</code></dt>
<dd>a numeric vector</dd> <dt><code>RelMutability_Jones</code></dt>
<dd>a numeric vector</dd> 
</dl>

Format

Amino Acid Properties — aa.prop.list

A data frame with 20 observations on the following 13 variables.<dl>
 <dt><code>Symbol</code></dt>
<dd>a chacracter vector with 20 values: A through Y</dd>

 <dt><code>AA_Name</code></dt>
<dd>a chacracter vector with 20 values: Alanine through Tyrosine</dd>

 <dt><code>AA_Symbol</code></dt>
<dd>a chacracter vector with 20 values: Ala through Tyr</dd>

 <dt><code>Surface_Area_Chothia</code></dt>
<dd>a numeric vector</dd>

 <dt><code>Residue_Volume_Zamayatin</code></dt>
<dd>a numeric vector</dd>

 <dt><code>Bulkiness_Jones</code></dt>
<dd>a numeric vector</dd>

 <dt><code>Polarity_Jones</code></dt>
<dd>a numeric vector</dd>

 <dt><code>Refractivity_Jones</code></dt>
<dd>a numeric vector</dd>

 <dt><code>Hydrophobicity_Engleman</code></dt>
<dd>a numeric vector</dd>

 <dt><code>Hydrophobicity_Prabha</code></dt>
<dd>a numeric vector</dd>

 <dt><code>Hydrophilicity_Hopp</code></dt>
<dd>a numeric vector</dd>

 <dt><code>Hydrophilicity_Levitt</code></dt>
<dd>a numeric vector</dd>

 <dt><code>RelMutability_Jones</code></dt>
<dd>a numeric vector</dd>

 
</dl>

aa.prop.list: Amino Acid Properties

Description

Arguments

Format