CreateOnePairOfRandomCatalogs: Create a pair of "random" synthetic catalogs, one for...

In steverozen/SynSigGen: Create Catalogs of Synthetic Mutational Spectra

Create a pair of "random" synthetic catalogs, one for 96-channel and one for COMPOSITE features.

Description

Create a pair of "random" synthetic catalogs, one for 96-channel and one for COMPOSITE features.

Usage

CreateOnePairOfRandomCatalogs(
  num.syn.tumors,
  total.num.sigs,
  mut.mean,
  mut.sd,
  num.sigs.mean,
  num.sigs.sd,
  sig.name.prefix,
  sample.name.prefix,
  composite.dir.name,
  x96.dir.name,
  COMPOSITE.features,
  overwrite = FALSE,
  verbose = TRUE
)

Arguments

num.syn.tumors	Total number of synthetic tumors to create.
total.num.sigs	Total number of signatures in the universe.
mut.mean	Mean of the log10 of the number of mutations due to each signature.
mut.sd	Standard deviation of the log10 of the number of mutations due to each signature.
num.sigs.mean	Mean number of signatures contributing to each tumor.
num.sigs.sd	Standard deviation the number of signatures contribution to each tumor.
sig.name.prefix	String to put in front of an integer (as string) to form an identifier for a synthetic signature.
sample.name.prefix	String to put in front of an integer (as string) to form an identifier for a synthetic sample (tumor).
composite.dir.name	string indicating the name of the COMPOSITE subdirectory; probably one of "sa.sa.COMPOSITE" or "sp.sa.COMPOSITE".
x96.dir.name	A string indicating the name of the 96-channel subdirectory; probably one of "sa.sa.COMPOSITE" or "sp.sa.COMPOSITE".
COMPOSITE.features	Character vector containing rownames for a COMPOSITE signature or catalog.
overwrite	If TRUE overwrite existing directories / files.

steverozen/SynSigGen documentation built on April 1, 2022, 8:54 p.m.