generate_rnk: Generate rnk format file
In machalen/AnalysisFunctions: Package with basic analysis functions for genomic data

This function generates .rnk format files to use in the GSEA analysis

1	generate_rnk(RNKfile, col.names, rnk)

`RNKfile`	Data frame with values of Symbol, P.Value and logFC
`col.names`	Vector with the name of the columns corresponding to Symbol, P.Value and logFC
`rnk`	Path and name of the output file with .rnk termination

.rnk files have a column with geneID and a column with a ranking score calculated using the formula -log10(p.Val)*sign(logFC)

.rnk format file

Magdalena Arnal Segura <marnal@imim.es>

https://software.broadinstitute.org/cancer/software/gsea/wiki/index.php/Data_formats

machalen/AnalysisFunctions documentation built on Nov. 11, 2019, 10:26 a.m.

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