Extract subclonal data for a patient.

From a cohort object, this function extracts the tibble of subclonal events for a patient (either CCF or binary).

Subclonal(x, p)

Arguments

x

A REVOLVER cohort.

p

The id of a patient in the cohort.

Value

Subclonal data for a custom patient.

See also

Other Getters: CCF(), CCF_clusters(), Clonal_cluster(), Data(), Drivers(), ITransfer(), Phylo(), Samples(), Truncal(), get_features()

Examples

# Data released in the 'evoverse.datasets'
data('TRACERx_NEJM_2017_REVOLVER', package = 'evoverse.datasets')

Subclonal(TRACERx_NEJM_2017_REVOLVER, 'CRUK0002')
#> # A tibble: 5 × 12
#>   id    Misc  patientID variantID is.driver is.clonal cluster cluster_size CCF  
#>   <chr> <chr> <chr>     <chr>     <lgl>     <lgl>     <chr>          <int> <chr>
#> 1 __mu… CRUK… CRUK0002  RB1       TRUE      FALSE     1                  3 R1:0…
#> 2 __mu… CRUK… CRUK0002  IKZF1     TRUE      FALSE     1                  3 R1:0…
#> 3 __mu… Anno… CRUK0002  KRAS      TRUE      FALSE     1                  3 R1:0…
#> 4 __mu… CRUK… CRUK0002  NF1       TRUE      FALSE     5                  1 R1:0…
#> 5 __mu… CRUK… CRUK0002  EP300     TRUE      FALSE     6                  1 R1:0…
#> # ℹ 3 more variables: R1 <dbl>, R2 <dbl>, R3 <dbl>

Subclonal(TRACERx_NEJM_2017_REVOLVER, 'CRUK0008')
#> # A tibble: 1 × 11
#>   id    Misc  patientID variantID is.driver is.clonal cluster cluster_size CCF  
#>   <chr> <chr> <chr>     <chr>     <lgl>     <lgl>     <chr>          <int> <chr>
#> 1 __mu… CRUK… CRUK0008  ARID2     TRUE      FALSE     3                  1 R1:0…
#> # ℹ 2 more variables: R1 <dbl>, R2 <dbl>