Hello,
is it possible to ignore chrY in the analysis? My dataset are XX only.
I after running DNACopy segmentatino am getting the error show below.
thanks for help
jiri
> fit(sm, verbose=-10)
Error: Something is wrong with the copy-number ratios of sample
'01_373_(GenomeWideSNP_6),XX,chipEffects' relative to reference
'.baseline,bf85562dc930e3620df3953363436145' on chromosome 24. Too many
non-finite values: 9688 (100.0% > 20.0%) out of 9688.
In addition: There were 24 warnings (use warnings() to see them)
Array #1 ('01_373_(GenomeWideSNP_6)') of 136 on chromosome 24...done
> pathname <- writeRegions(sm, verbose=verbose);
20130814 15:14:19|Array #1 ('01_373_(GenomeWideSNP_6)') of 136...
20130814 15:14:19| Extracting regions from all fits...
20130814 15:14:19| Obtaining CN model fits (or fit if missing)...
[2013-08-14 15:15:00] Exception: Something is wrong with the copy-number
ratios of sample '01_373_(GenomeWideSNP_6),XX,chipEffects' relative to
reference '.baseline,bf85562dc930e3620df3953363436145' on chromosome 24.
Too many non-finite values: 9688 (100.0% > 20.0%) out of 9688.
(pathname obj is not created)
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