addMetaFeatures

The meta-features table is useful anytime there are metadata variables that
cannot be mapped 1:1 to your features. For example, a peptide may be
associated with multiple proteins.

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.

John Blischak

OmicNavigator

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

Terrence Ernst

Paul Nordlund

Justin Moore

Joe Dalen

Akshay Bhamidipati

Brett Engelmann

Marco Curado

Joe LoGrasso

AbbVie Inc. 

addMetaFeatures function

<dl><dt>study</dt>
<dd>An OmicNavigator study created with <code>createStudy</code></dd>
<dt>metaFeatures</dt>
<dd>The metadata variables that describe the meta-features in
the study. The input object is a list of data frames (one per model). The
first column of each data frame is used as the featureID, so it must
contain the same IDs as the corresponding features data frame
(<code>addFeatures</code>). To share a data frame across multiple models,
use the modelID "default". All columns will be coerced to character
strings.</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 meta-feature metadata — addMetaFeatures

<dl>

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


<dt>metaFeatures</dt>
<dd>The metadata variables that describe the meta-features in
the study. The input object is a list of data frames (one per model). The
first column of each data frame is used as the featureID, so it must
contain the same IDs as the corresponding features data frame
(<code>addFeatures</code>). To share a data frame across multiple models,
use the modelID "default". All columns will be coerced to character
strings.</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 meta-feature metadata

addMetaFeatures: Add meta-feature metadata

Description

Usage

Value

Arguments