compare_cosmic_v2: Compare a result object to COSMIC V2 SBS Signatures...

In campbio/musicatk: Mutational Signature Comprehensive Analysis Toolkit

Compare a result object to COSMIC V2 SBS Signatures (combination whole-exome and whole-genome)

Description

Compare a result object to COSMIC V2 SBS Signatures (combination whole-exome and whole-genome)

Usage

compare_cosmic_v2(
  result,
  threshold = 0.9,
  metric = "cosine",
  result_name = deparse(substitute(result)),
  decimals = 2,
  same_scale = FALSE
)

Arguments

result	A musica_result object.
threshold	threshold for similarity
metric	One of "cosine" for cosine similarity or "jsd" for 1 minus the Jensen-Shannon Divergence. Default "cosine".
result_name	title for plot user result signatures
decimals	Specifies rounding for similarity metric displayed. Default 2.
same_scale	If TRUE, the scale of the probability for each signature will be the same. If FALSE, then the scale of the y-axis will be adjusted for each signature. Default TRUE.

Value

Returns the comparisons

Examples

data(res)
compare_cosmic_v2(res, threshold = 0.7)

campbio/musicatk documentation built on Oct. 22, 2023, 8:28 p.m.