Run tximport on a set of cells

Source: R/create_seu.R

cells can be quantified using:

  • stringtie

  • salmon

load_counts_by_tximport(
  proj_dir,
  type = "salmon",
  countsFromAbundance = "scaledTPM",
  edb = EnsDb.Hsapiens.v86::EnsDb.Hsapiens.v86
)

Arguments

proj_dir

project directory

type

stringtie or salmon

countsFromAbundance

argument provided to tximport

edb