diff_SNP

Do difference analysis of SNP data

Gene Expression Omnibus(GEO) and The Cancer Genome Atlas (TCGA)
provide us with a wealth of data, such as RNA-seq, DNA Methylation, SNP
and Copy number variation data. It's easy to download data from TCGA using the
gdc tool, but processing these data into a format suitable for bioinformatics
analysis requires more work. This R package was developed to handle these data.

Erqiang Hu

GeoTcgaData

Processing various types of data on GEO and TCGA

diff_SNP function

<dl><dt>snpDf</dt>
<dd>data.frame of SNP data.</dd>
<dt>sampleGroup</dt>
<dd>vector of sample group.</dd>
<dt>method</dt>
<dd>Method of combining the pvalue of multiple snp in a gene.</dd></dl>

Arguments

Do difference analysis of SNP data — diff_SNP

<dl>

<dt>snpDf</dt>
<dd>data.frame of SNP data.</dd>


<dt>sampleGroup</dt>
<dd>vector of sample group.</dd>


<dt>method</dt>
<dd>Method of combining the pvalue of multiple snp in a gene.</dd>

</dl>

diff_SNP: Do difference analysis of SNP data

Description

Usage

Arguments