Create ArchRProject from ArrowFiles — ArchRProject • ArchR

This function will create an ArchRProject from the provided ArrowFiles.

ArchRProject(
  ArrowFiles = NULL,
  outputDirectory = "ArchROutput",
  copyArrows = TRUE,
  geneAnnotation = getGeneAnnotation(),
  genomeAnnotation = getGenomeAnnotation(),
  showLogo = TRUE,
  threads = getArchRThreads()
)

Arguments

ArrowFiles	A character vector containing the relative paths to the ArrowFiles to be used.
outputDirectory	A name for the relative path of the outputDirectory for ArchR results. Relative to the current working directory.
copyArrows	A boolean value indicating whether ArrowFiles should be copied into `outputDirectory`.
geneAnnotation	The `geneAnnotation` object (see `createGeneAnnotation()`) to be used for downstream analyses such as calculating TSS Enrichment Scores, Gene Scores, etc.
genomeAnnotation	The `genomeAnnotation` object (see `createGenomeAnnotation()`) to be used for downstream analyses requiring genome information such as nucleotide information or chromosome sizes.
showLogo	A boolean value indicating whether to show the ascii ArchR logo after successful creation of an `ArchRProject`.
threads	The number of threads to use for parallel execution.