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) -- -- When reporting problems on aroma.affymetrix, make sure 1) to run the latest version of the package, 2) to report the output of sessionInfo() and traceback(), and 3) to post a complete code example. You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group with website http://www.aroma-project.org/. To post to this group, send email to aroma-affymetrix@googlegroups.com To unsubscribe and other options, go to http://www.aroma-project.org/forum/ --- You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group. To unsubscribe from this group and stop receiving emails from it, send an email to aroma-affymetrix+unsubscr...@googlegroups.com. For more options, visit https://groups.google.com/groups/opt_out.