fangxiaolan

following is one of the tumor examples: 8e5f741c-996c-4b44-84c4-c9e9e5529944/TCGA-E2-A15A-01A-11D-A12B-09_IlluminaGA-DNASeq_exome_gdc_realn.bam Normal control is: a2d7ab5a-935c-4b96-bf38-1891fa437922/TCGA-E2-A15A-10A-01D-A12B-09_IlluminaGA-DNASeq_exome_gdc_realn.bam And the coverage for tumor is 259X and normal is 287X. Both are WXS samples.

I'm not sure how to check sum(oo$jointseg$het) and nrow(oo$jointseg), and are those metrics included in one of the data files resulting from FACETS analysis? I checked the procSample-jseg file for...

I'm not sure whether the segments are consistent through the files. In the FACETS_heterogeneity_cncf_EM file the segment number is 33. procSample-jseg file has 8856 objects, which I assume are segments...

No cluster was grouped in this case as reported in the title. lcn.em is all NA. That's the issue we want to solve...