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BIMSBbioinfo / pigx_rnaseq

Bulk RNA-seq Data Processing, Quality Control, and Downstream Analysis Pipeline
GNU General Public License v3.0
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DESeq result table headers #32

Closed Nicolai-vKuegelgen closed 6 years ago

Nicolai-vKuegelgen commented 6 years ago

The {sample}.deseq_result.tsv tables have a minor error in the header:

baseMean log2FoldChange lfcSE stat pvalue padj geneName  
ENSMUST00000170241.7 1079.6198652353 6.724065275 0.2811070578 23.9199446937 1.90E-126 1.36E-121 NA

The gene/transcript ID column (probably used as row-index internally?) doesn't get a name which shifts the header for the other columns.

borauyar commented 6 years ago

Hi Nicolai,

This is not an error. This table can be read into a data frame using the default settings of read.table function from the base utils library:

You can read it via: df <- utils::read.table(<filepath>)