beam_dat

The beam.data object used in example beam analyses

datasets

A bootstrap-based approach to integrate multiple forms of
high dimensional genomic data with multiple clinical endpoints.  This method
is used to find clinically meaningful groups of genomic features, such
as genes or pathways. A manuscript describing this method is in preparation.

Anna Eames Seffernick

BEAMR

Bootstrap Evaluation of Association Matrices

Stanley Pounds

Xueyuan Cao

beam_dat function

<div class="section" id="beam-dat">
<h3><code>beam_dat</code></h3>
A beam.data object, which is a list with the following elements:<dl>
<dt>main.data</dt>
<dd>A data.frame with clinical/endpoint data.</dd><dt>mtx.data</dt>
<dd>A list of the omics data matrices.</dd><dt>mtx.anns</dt>
<dd>A list of omic annotation data.frames.</dd><dt>anns.mtch</dt>
<dd>A data.frame with information to link mtx.data and mtx.anns.</dd><dt>set.data</dt>
<dd>A data.frame with set.id, mtx.id, and row.id to link omic features to sets.</dd><dt>set.anns</dt>
<dd>Optional data.frame with set annotation data.</dd><dt>boot.index</dt>
<dd>A matrix with bootstrap indices.</dd>
</dl></div>

Format

Pediatric T-ALL Clinical Data from COG trial AALL0434 — beam_dat

<div class='section' id='beam-dat'>
<h3><code>beam_dat</code></h3>


A beam.data object, which is a list with the following elements:<dl>
<dt>main.data</dt>
<dd>A data.frame with clinical/endpoint data.</dd>

<dt>mtx.data</dt>
<dd>A list of the omics data matrices.</dd>

<dt>mtx.anns</dt>
<dd>A list of omic annotation data.frames.</dd>

<dt>anns.mtch</dt>
<dd>A data.frame with information to link mtx.data and mtx.anns.</dd>

<dt>set.data</dt>
<dd>A data.frame with set.id, mtx.id, and row.id to link omic features to sets.</dd>

<dt>set.anns</dt>
<dd>Optional data.frame with set annotation data.</dd>

<dt>boot.index</dt>
<dd>A matrix with bootstrap indices.</dd>


</dl>

</div>

beam_dat: Pediatric T-ALL Clinical Data from COG trial AALL0434

Description

Usage

Arguments

Format

`beam_dat`