shows the available cell metadata
See also
Other functions to show data in giotto object:
showGiottoDimRed(),
showGiottoExpression(),
showGiottoFeatInfo(),
showGiottoFeatMetadata(),
showGiottoImageNames(),
showGiottoNearestNetworks(),
showGiottoSpatEnrichments(),
showGiottoSpatGrids(),
showGiottoSpatLocs(),
showGiottoSpatNetworks(),
showGiottoSpatialInfo()
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"
showGiottoCellMetadata(g)
#> └──Spatial unit "cell"
#> └──Feature type "rna"
#> An object of class cellMetaObj
#> spat_unit : "cell"
#> feat_type : "rna"
#> provenance: cell
#> dimensions: 4 7
#>
#> cell_ID in_tissue nr_feats perc_feats total_expr leiden_clus
#> <char> <int> <int> <num> <num> <num>
#> 1: AACTCGATGGCGCAGT-1 1 265 41.79811 1057.9308 2
#> 2: GGCTGGCTAGCTTAAA-1 1 279 44.00631 1064.7493 5
#> 3: GACGCCTGTTGCAGGG-1 1 219 34.54259 964.9294 2
#> custom_leiden
#> <num>
#> 1: 4
#> 2: 3
#> 3: 3
#>