Description Usage Arguments Details Author(s) References
TAPS_compare generates a comparison of aberration frequencies in two groups of samples (on which TAPS_call has completed).
1 | TAPS_compare(grp1, grp2, name1='1', name2='2', outdir='frequencies_comp', hg19=T)
|
grp1 |
Supply a (boolean, integer or sample name) vector of samples in the first group. |
grp2 |
Supply a (boolean, integer or sample name) vector of samples in the second group. |
name1 |
Supply a name for the first group. (Default='1') |
name2 |
Supply a name for the second group. (Default='2') |
outdir |
All results are written to this directory. |
hg19 |
The reference genome 'hg19' will be used for genes. If FALSE, reverts to hg18. |
This function compares aberration frequencies in two groups of samples. Run from the directory containing sample folders. Make sure TAPS_call() completed successfully on all (included) samples.
Markus Mayrhofer, markus.mayrhofer@medsci.uu.se
Hanna Goransson Kultima, hanna.goransson.kultima@medsci.uu.se
Sebastian DiLorenzo, sebastian.dilorenzo@medsci.uu.se
Bjorn Viklund, bjorn.viklund@medsci.uu.se
http://www.biomedcentral.com/content/pdf/gb-2011-12-10-r108.pdf
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