BladderSkin1000: Generate synthetic data sets modeled on bladder TCC and skin...

In steverozen/SynSigGen: Create Catalogs of Synthetic Mutational Spectra

Generate synthetic data sets modeled on bladder TCC and skin melanoma.

Description

Creates spectra dataset consists of 500 synthetic bladder transitional cell carcinoma with high prevalence and mutation load from SBS2, and 500 synthetic skin melanoma with high prevalence and mutation load from SBS7a and SBS7b. This dataset challenges the computational approaches as SBS2 has a similar pattern to the mixture of SBS7a and SBS7b, thus the existence of these signatures may interfere computational approaches from accurately extracting these signatures.

Usage

BladderSkin1000(
  seed = 191906,
  regress.dir = "data-raw/long.test.regression.data/syn.2.7a.7b.bladder.and.melanoma/",
  top.level.dir = "../2.7a.7b.bladder.and.melanoma.191906",
  unlink = FALSE
)

Arguments

seed	A random seed to use.
regress.dir	If not NULL, compare the result to the contents of this directory with a diff.
top.level.dir	The directory in which to put the output; will be created if necessary.
unlink	If TRUE and !is.null(regress.dir), then unlink the result directory if there are no differences.

Details

This function replaces the first part of data-raw/Create.2.7a.7b.Rmd in GitHub repository steverozen/SynSig. With default arguments, this function generates the same results as the first part of data-raw/Create.2.7a.7b.Rmd.

#' The second half of data-raw/Create.2.7a.7b.Rmd is replaced by Create.2.7a.7b.Abstract.

Data set generated by this function can be found at Synapse with Synapse ID: syn18500217.

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