prepare_altexp_for_merge: Prepare an alternative experiment for merging

In AlexsLemonade/scpcaTools: Single cell data tools for ScPCA

Prepare an alternative experiment for merging

Description

If the given 'altexp_name' name is missing from the SCE, a new one with all NA assays will be created.

Usage

prepare_altexp_for_merge(
  sce,
  sce_name,
  altexp_name,
  expected_assays,
  expected_features,
  batch_column,
  cell_id_column,
  retain_coldata_cols,
  preserve_rowdata_cols
)

Arguments

sce	SCE with altExp to prepare
sce_name	SCE name
altexp_name	Name of altExp of interest
expected_assays	Vector of assays that should be in each altExp
expected_features	Vector of features that should be in each altExp
batch_column	The name of the batch column which will be added to the colData slot.
cell_id_column	The name of the cell_id column which will be added to the colData slot.
retain_coldata_cols	Named list of columns that should be retained in alternative experiment colData. Each name should correspond to the alternative experiment in which it should be retained.
preserve_rowdata_cols	altExp rowData columns which should not be renamed

Value

An SCE with an updated altExp

AlexsLemonade/scpcaTools documentation built on July 12, 2024, 8:34 a.m.