| show_which_ccls_contain_variant {Uniquorn} | R Documentation |
This function displays all cancer cell lines in the database which contain a specified variant. Utilizes closed interval coordinates.
show_which_ccls_contain_variant(
start,
end,
chromosome,
ref_gen,
library_name,
mutational_weight_inclusion_threshold
)
start |
Start coordinate |
end |
Stop coordinate |
chromosome |
Chromosome, 'chr' prefixes are ignored |
ref_gen |
a character vector specifying the reference genome
version. All training sets are associated with a reference genome
version. Default is |
library_name |
Name of the reference library |
mutational_weight_inclusion_threshold |
Include only mutations with a weight of at least x. Range: 0.0 to 1.0. 1= unique to CL. ~0 = found in many CCL samples. |
Returns a GenomicRanges object that contains the variant if present. Member ccls can be found in the $Member_ccl vector
show_which_ccls_contain_variant(
start = 92030762,
end = 92030762,
chromosome = 8,
ref_gen = "GRCH37",
library_name = "CELLMINER",
mutational_weight_inclusion_threshold = 0
)