d><p>A numeric matrix of coefficients for the surrogate
variables. The rows index the genes and the columns index the
variables.</p></td>
    </tr>
    </table>

    <h2 class="hasAnchor" id="value"><a class="anchor" href="#value"></a>Value</h2>

    <p>A list object with some or all of the following elements:</p><dl class='dl-horizontal'>
 <dt><code>mat</code></dt><dd><p>A matrix of RNA-seq counts. The rows index the genes and
     the columns index the samples.</p></dd>
 <dt><code>designmat</code></dt><dd