compute_abundance: Compute the abundance scores of nodes in a network

In heimannch/abcnet: Compute scores of an abundant-concordant cytokine network

Description

Compute the abundance scores of nodes in a network

Usage

compute_abundance(dfn, node, ids, exprv, group, cois, gois)

Arguments

dfn	A dataframe with the cell abundance and gene expression values, in a tidy format. Each row of the measurement data should contain, at least, the following columns: a sample ID; node ID; expression value of this node for this sample; group of this sample ID.
node	Name of the column with the nodes names.
ids	Name of the column with the ID of each sample.
exprv	Name of the column with the value of expression data.
group	Name of the column with the group information of the sample.
cois	Cells of interest to filter from the scaffold.
gois	Genes of interest to be filtered.

Value

A dataframe with the ternary bins for each node and the ratio of samples in each group that map to the two upper tertiles.

heimannch/abcnet documentation built on Jan. 2, 2021, 5:06 p.m.