list_dim_reductions_names

return the available dimension reductions object names

Usage

list_dim_reductions_names(
  gobject,
  data_type = "cells",
  spat_unit = NULL,
  feat_type = NULL,
  dim_type = NULL
)

Arguments

gobject

giotto object

data_type

cells or feats dim reduction

spat_unit

spatial unit (e.g. "cell")

feat_type

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

dim_type

dimensional reduction type (method)

Value

names of dimension reduction object

Details

function that can be used to find which names have been used

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_dim_reductions_names(g,
    spat_unit = "cell", feat_type = "rna",
    dim_type = "pca"
)
#> [1] "pca"        "custom_pca"