Get balanced spatial coexpression features

Source: R/spatial_genes.R

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