TAPS_freq: Tumor Abberation Prediction Suite

In TAPS: Tumor Abberation Prediction Suite

Description

TAPS_freq generates a summary of aberration frequencies in several samples (on which TAPS_call has completed).

Usage

TAPS_freq(samples='all', outdir='frequencies', hg19=T)

Arguments

samples	Default is 'all'. Alternatively, supply a (boolean, integer or sample name) vector of included samples.
outdir	All results are written to this directory.
hg19	The reference genome 'hg19' will be used for genes. If FALSE, reverts to hg18.

Details

This function summarizes aberration frequencies over multiple samples. Run from the directory containing sample folders. Make sure TAPS_call() completed successfully on all (included) samples.

Author(s)

Markus Mayrhofer, [e-mail]
Hanna Goransson Kultima, [e-mail]
Sebastian DiLorenzo, [e-mail]
Bjorn Viklund, [e-mail]

References

http://www.biomedcentral.com/content/pdf/gb-2011-12-10-r108.pdf

TAPS documentation built on May 2, 2019, 4:47 p.m.