Copy Unify Output — rc3_copy_unify

Copy the output generated by the unify script, to the setup directory, and symlink a few things. Note that recount3 is expecting human or mouse, with the relevant annotation. If you are using this, you could have generated anything you wanted (I build this to handle zebrafish using MZ11). Therefore, it copies the files, then symlinks them to the names that recount3 expects.

Usage

rc3_copy_unify_outputs(
  rc3_directory = NULL,
  short_id = "test",
  unify_directory = NULL,
  references_directory = NULL,
  organism = "human",
  annotation = "G026"
)

Arguments

rc3_directory: where you want things copied to (sort of)
short_id: the short id of the project
unify_directory: where the unify outputs are stored
references_directory: where the reference data is stored
organism: what organism is the data (for real or pretend)
annotation: what annotations are we interested in (for real or pretend)

Value

output of the "tree" command on rc3_directory