getBalancedSpatCoexpressionFeats — getBalancedSpatCoexpressionFeats • Giotto

Extract features from spatial co-expression modules in a balanced manner

getBalancedSpatCoexpressionFeats(
  spatCorObject,
  maximum = 50,
  rank = c("weighted", "random", "informed"),
  informed_ranking = NULL,
  seed = NA,
  verbose = TRUE
)

Arguments

spatCorObject: spatial correlation object
maximum: maximum number of genes to get from each spatial co-expression module
rank: ranking method (see details)
informed_ranking: vector of ranked features
seed: seed
verbose: verbosity

Value

balanced vector with features for each co-expression module

Details

There are 3 different ways of selecting features from the spatial co-expression modules

1. weighted: Features are ranked based on summarized pairwise co-expression scores
2. random: A random selection of features, set seed for reproducibility
3. informed: Features are selected based on prior information/ranking