countToTpm_matrix

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

countToTpm_matrix function

<dl><dt>counts_matrix</dt>
<dd>a matrix, colnames of counts_matrix are sample name,
rownames of counts_matrix are gene symbols</dd>
<dt>keyType</dt>
<dd>keyType</dd>
<dt>gene_cov</dt>
<dd>gene_cov</dd></dl>

Arguments

Convert count to Tpm — countToTpm_matrix

<dl>

<dt>counts_matrix</dt>
<dd>a matrix, colnames of counts_matrix are sample name,
rownames of counts_matrix are gene symbols</dd>


<dt>keyType</dt>
<dd>keyType</dd>


<dt>gene_cov</dt>
<dd>gene_cov</dd>

</dl>

countToTpm_matrix: Convert count to Tpm

Description

Usage

Value

Arguments

Examples