getBalancedSpatCoexpressionFeats: getBalancedSpatCoexpressionFeats

In drieslab/Giotto_site_suite: Spatial Single-Cell Transcriptomics Toolbox

getBalancedSpatCoexpressionFeats

Description

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

Usage

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

Details

There are 3 different ways of selectig 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

Value

balanced vector with features for each co-expression module

drieslab/Giotto_site_suite documentation built on April 26, 2023, 11:51 p.m.