data_matrix

This is data to be included in package

datasets

A method that inherits the standard gene set variation analysis (GSVA) method and also provides the option to use summary statistics from any analysis (disease vs healthy, lesional side vs nonlesional side, etc..) input to define the direction of gene sets used for directional gene set score calculation for a given disease. Note to use this package, GSVA(>= 1.52.1) is needed to pre-installed.
Hanzelmann, S., Castelo, R., and Guinney, J. (2013) <doi:10.1186/1471-2105-14-7>.

Xingpeng Li

ssdGSA

Single Sample Directional Gene Set Analysis

Qi Qian

data_matrix function

An example data matrix of gene expressions with gene ensembl ID as row names and
columns corresponding to different samples.<dl>
<dt>S1</dt>
<dd>gene expression for this gene from the 1st sample</dd><dt>S2</dt>
<dd>gene expression for this gene from the 2nd sample</dd><dt>S3</dt>
<dd>gene expression for this gene from the 3rd sample</dd><dt>S4</dt>
<dd>gene expression for this gene from the 4th sample</dd><dt>S5</dt>
<dd>gene expression for this gene from the 5th sample</dd><dt>S6</dt>
<dd>gene expression for this gene from the 6th sample</dd><dt>S7</dt>
<dd>gene expression for this gene from the 7th sample</dd><dt>S8</dt>
<dd>gene expression for this gene from the 8th sample</dd><dt>S9</dt>
<dd>gene expression for this gene from the 9th sample</dd><dt>S10</dt>
<dd>gene expression for this gene from the 10th sample</dd></dl>

Format

This is data to be included in package — data_matrix

An example data matrix of gene expressions with gene ensembl ID as row names and
columns corresponding to different samples.<dl>
<dt>S1</dt>
<dd>gene expression for this gene from the 1st sample</dd>

<dt>S2</dt>
<dd>gene expression for this gene from the 2nd sample</dd>

<dt>S3</dt>
<dd>gene expression for this gene from the 3rd sample</dd>

<dt>S4</dt>
<dd>gene expression for this gene from the 4th sample</dd>

<dt>S5</dt>
<dd>gene expression for this gene from the 5th sample</dd>

<dt>S6</dt>
<dd>gene expression for this gene from the 6th sample</dd>

<dt>S7</dt>
<dd>gene expression for this gene from the 7th sample</dd>

<dt>S8</dt>
<dd>gene expression for this gene from the 8th sample</dd>

<dt>S9</dt>
<dd>gene expression for this gene from the 9th sample</dd>

<dt>S10</dt>
<dd>gene expression for this gene from the 10th sample</dd>



</dl>

data_matrix: This is data to be included in package

Description

Usage

Arguments

Format