R: Internal read catalog function to be wrapped in a tryCatch

ReadCatalogInternal

R Documentation

Internal read catalog function to be wrapped in a tryCatch

Internal read catalog function to be wrapped in a tryCatch

ReadCatalogInternal(
  file,
  ref.genome = NULL,
  region = "unknown",
  catalog.type = "counts"
)

`file`	Path to a catalog on disk in a standardized format. The recognized formats are: ICAMS formatted SBS96, SBS192, SBS1536, DBS78, DBS136, DBS144, ID (see `CatalogRowOrder`). SigProfiler-formatted SBS96, DBS78 and ID83 catalogs; see https://github.com/AlexandrovLab/SigProfilerExtractor. COSMIC-formatted SBS96, SBS192 (a.k.a. TSB192), DBS78, ID83 catalogs; see https://cancer.sanger.ac.uk/signatures/.
`ref.genome`	A `ref.genome` argument as described in `ICAMS`.
`region`	region A character string designating a genomic region; see `as.catalog` and `ICAMS`.
`catalog.type`	One of "counts", "density", "counts.signature", "density.signature".