run_atac_exploratory

Run exploratory analyses for ATAC-seq data

run_atac_exploratory(
  dsa,
  anaDir,
  chromVarObj = NULL,
  itLsiObj = NULL,
  geneActSe = NULL
)

Arguments

dsa

DsATAC object

anaDir

analysis directory

chromVarObj

[optional] pre-computed result of a call to run_atac_chromvar(...)

itLsiObj

[for single-cell only; optional] pre-computed result of a call to iterativeLSI(.object, ...)

geneActSe

[for single-cell only; optional] pre-computed result of a call to getCiceroGeneActivities(.object, ...)

Value

S3 object containing exploratory metrics and an analysis report object

Author

Fabian Mueller