Hi, I have successfully run TumorBoost on my samples. I would like to retrieve the LOH calls from this. How should I proceed?
Here is the object I created: > dsListf $normal AromaUnitFracBCnBinarySet: Name: OvarianCancer Tags: ACC,ra,-XY,BPN,-XY,AVG,FLN,-XY Full name: OvarianCancer,ACC,ra,-XY,BPN,-XY,AVG,FLN,-XY Number of files: 1 Names: 0800098 [1] Path (to the first file): totalAndFracBData/OvarianCancer,ACC,ra,- XY,BPN,-XY,AVG,FLN,-XY/GenomeWideSNP_6 Total file size: 7.18 MB RAM: 0.00MB $tumor AromaUnitFracBCnBinarySet: Name: OvarianCancer Tags: ACC,ra,-XY,BPN,-XY,AVG,FLN,-XY Full name: OvarianCancer,ACC,ra,-XY,BPN,-XY,AVG,FLN,-XY Number of files: 1 Names: 0800098 [1] Path (to the first file): totalAndFracBData/OvarianCancer,ACC,ra,- XY,BPN,-XY,AVG,FLN,-XY/GenomeWideSNP_6 Total file size: 7.18 MB RAM: 0.00MB $tumorN AromaUnitFracBCnBinarySet: Name: OvarianCancer Tags: ACC,ra,-XY,BPN,-XY,AVG,FLN,-XY,ACC,ra,-XY,BPN,-XY,AVG,FLN,- XY,NGC Full name: OvarianCancer,ACC,ra,-XY,BPN,-XY,AVG,FLN,-XY,ACC,ra,- XY,BPN,-XY,AVG,FLN,-XY,NGC Number of files: 1 Names: 0800098 [1] Path (to the first file): totalAndFracBData/OvarianCancer,ACC,ra,- XY,BPN,-XY,AVG,FLN,-XY,ACC,ra,-XY,BPN,-XY,AVG,FLN,-XY,NGC/ GenomeWideSNP_6 Total file size: 7.18 MB RAM: 0.00MB $callsN AromaUnitGenotypeCallSet: Name: OvarianCancer Tags: ACC,ra,-XY,BPN,-XY,AVG,FLN,-XY,NGC Full name: OvarianCancer,ACC,ra,-XY,BPN,-XY,AVG,FLN,-XY,NGC Number of files: 1 Names: 0800098 [1] Path (to the first file): callData/OvarianCancer,ACC,ra,-XY,BPN,- XY,AVG,FLN,-XY,NGC/GenomeWideSNP_6 Total file size: 3.59 MB RAM: 0.00MB Thank you! Regards, Sigrid -- 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/
