Open komalsrathi opened 2 weeks ago
Created this branch off of update-nf1-score branch.
Comparison of base and annotated histologies file:
base_file <- read_tsv("data/Hope-GBM-histologies-base.tsv") annotated_file <- read_tsv("analyses/molecular-subtyping-HGG/results/Hope-GBM-histologies.tsv") # new samples annotated_file %>% filter(sample_id %in% c("7316-3000", "7316-1106")) %>% dplyr::select(sample_id, Kids_First_Biospecimen_ID, experimental_strategy, cancer_group, cancer_group_short, molecular_subtype) sample_id Kids_First_Biospecimen_ID experimental_strategy cancer_group cancer_group_short molecular_subtype <chr> <chr> <chr> <chr> <chr> <chr> 1 7316-1106 BS_96QPQX80 Methylation Pleomorphic xanthoastrocytoma NA PXA 2 7316-1106 BS_9XHV04WE WGS NA NA NA 3 7316-1106 BS_H1XPVS9A RNA-Seq Pleomorphic xanthoastrocytoma NA PXA 4 7316-1106 BS_J4E9SW51 WGS Pleomorphic xanthoastrocytoma NA PXA 5 7316-3000 BS_0TCRV9AC WGS NA NA NA 6 7316-3000 BS_ABZ3BK38 WGS High-grade glioma HGG HGG, H3 wildtype 7 7316-3000 BS_JRYJGYC4 RNA-Seq High-grade glioma HGG HGG, H3 wildtype 8 7316-3000 BS_Z0KPQPN2 Methylation NA NA NA
Wanted to ask what needs to be done for the PXAs?
Created this branch off of update-nf1-score branch.
Comparison of base and annotated histologies file:
Wanted to ask what needs to be done for the PXAs?