list_expression

lists the available matrices

Usage

list_expression(gobject, spat_unit = NULL, feat_type = NULL)

Arguments

gobject

giotto object

spat_unit

spatial unit (e.g. "cell")

feat_type

feature type (e.g. "rna", "dna", "protein")

Value

names and locations of available matrices as data.table. col order matters.

Examples

g <- GiottoData::loadGiottoMini("visium")
#> 1. read Giotto object
#> 2. read Giotto feature information
#> 3. read Giotto spatial information
#> 3.1 read Giotto spatial shape information
#> 3.2 read Giotto spatial centroid information
#> 3.3 read Giotto spatial overlap information
#> 4. read Giotto image information
#> python already initialized in this session
#>  active environment : 'giotto_env'
#>  python version : 3.10
#> checking default envname 'giotto_env'
#> a system default python environment was found
#> Using python path:
#>  "/usr/share/miniconda/envs/giotto_env/bin/python"

list_expression(g)
#>    spat_unit feat_type       name
#>       <char>    <char>     <char>
#> 1:      cell       rna        raw
#> 2:      cell       rna normalized
#> 3:      cell       rna     scaled