Create a SingleCellExperiment Object from a List of Data Frames — EntropySingleCellExperiment • SpatialFeatures

This function takes a list of data frames and a Molecule Experiment object and constructs a SingleCellExperiment object with the specified data structure.

Usage

EntropySingleCellExperiment(
  df_list,
  me,
  includeCounts = FALSE,
  concatenateFeatures = FALSE,
  nCores = 1
)

Arguments

df_list: A list of data frames, each containing assay data.
me: A MoleculeExperiment object.
includeCounts: logical (default FALSE) whether to include gene counts as features
concatenateFeatures: logical whether to concatenate all the features into a single assay (default FALSE). If FALSE the output SCE object has multiple assays
nCores: Number of cores (default 1)

Value

A SingleCellExperiment object.

Examples

data(example_me)
me <- loadBoundaries(me)
ent <- EntropyMatrix(me, c("subsector", "subconcentric",
"supersector", "superconcentric"), nCores = 1)
se <- EntropySingleCellExperiment(ent, me)
se
#> class: SingleCellExperiment 
#> dim: 178 14 
#> metadata(0):
#> assays(4): subsector subconcentric supersector superconcentric
#> rownames(178): 2010300C02Rik Acsbg1 ... Zfp536 Zfpm2
#> rowData names(0):
#> colnames(14): sample1.67500 sample1.67512 ... sample2.65070
#>   sample2.65071
#> colData names(5): Cell Sample_id x_central y_central boundaries
#> reducedDimNames(0):
#> mainExpName: NULL
#> altExpNames(0):