addMetaAssays

Experimental. Add metaAssay measurements that map to the metaFeatureIDs in
the metaFeatures table.

A tool for interactive exploration of the results from 'omics'
experiments to facilitate novel discoveries from high-throughput biology. The
software includes R functions for the 'bioinformatician' to deposit study
metadata and the outputs from statistical analyses (e.g. differential
expression, enrichment). These results are then exported to an interactive
JavaScript dashboard that can be interrogated on the user's local machine or
deployed online to be explored by collaborators. The dashboard includes
'sortable' tables, interactive plots including network visualization, and
fine-grained filtering based on statistical significance.

Brett Engelmann

OmicNavigator

Open-Source Software for 'Omic' Data Analysis and Visualization

Terrence Ernst

John Blischak

Paul Nordlund

Justin Moore

Joe Dalen

Akshay Bhamidipati

Marco Curado

Joe LoGrasso

Elyse Geoffroy

AbbVie Inc. 

addMetaAssays function

<dl><dt>study</dt>
<dd>An OmicNavigator study created with <code>createStudy</code></dd>
<dt>metaAssays</dt>
<dd>The metaAssays from the study. The input object is a list
of data frames (one per model). The row names should correspond to the
metaFeatureIDs (second column of data frame added via
<code>addMetaFeatures</code>). The column names should correspond to the
sampleIDs (<code>addSamples</code>). The data frame should only contain
numeric values. To share a data frame across multiple models, use the
modelID "default".</dd>
<dt>reset</dt>
<dd>Reset the data prior to adding the new data (default:
<code>FALSE</code>). The default is to add to or modify any previously added data
(if it exists). Setting <code>reset = TRUE</code> enables you to remove existing
data you no longer want to include in the study.</dd></dl>

Arguments

Add metaAssays — addMetaAssays

<dl>

<dt>study</dt>
<dd>An OmicNavigator study created with <code>createStudy</code></dd>


<dt>metaAssays</dt>
<dd>The metaAssays from the study. The input object is a list
of data frames (one per model). The row names should correspond to the
metaFeatureIDs (second column of data frame added via
<code>addMetaFeatures</code>). The column names should correspond to the
sampleIDs (<code>addSamples</code>). The data frame should only contain
numeric values. To share a data frame across multiple models, use the
modelID "default".</dd>


<dt>reset</dt>
<dd>Reset the data prior to adding the new data (default:
<code>FALSE</code>). The default is to add to or modify any previously added data
(if it exists). Setting <code>reset = TRUE</code> enables you to remove existing
data you no longer want to include in the study.</dd>

</dl>

Add metaAssays

addMetaAssays: Add metaAssays

Description

Usage

Arguments

See Also