cor_network: Tidy co-occurrence network data

In houyunhuang/ggcor: Extended tools for correlation analysis and visualization

Description

The function calculates correlation coefficient, statistical significance level and filters according to conditions.

Usage

cor_network(
  corr,
  p.value = NULL,
  directed = FALSE,
  row.names = NULL,
  col.names = NULL,
  rm.dup = TRUE,
  simplify = TRUE,
  weight = NULL,
  r.thres = 0.6,
  r.abs = TRUE,
  p.thres = 0.05,
  val.type = "tbl_graph"
)

## S3 method for class 'cor_network'
print(x, n = 3, ...)

Arguments

corr	correlation matrix.
p.value	significant matrix of correlation.
directed	logical value, whether or not to create a directed graph.
row.names, col.names	row and column names of correlation matrix.
rm.dup	logical (defaults to TRUE) indicating whether remove duplicate rows. If TRUE, the correlation between A-B and B-A is retained only A-B.
simplify	logical value (defaults to TRUE) indicating whether to delete nodes without edge connections.
weight	NULL (default) or name of column in edges which will be renamed to "weight".
r.thres	a numeric value.
r.abs	logical value (defaults to TRUE).
p.thres	a numeric value.
val.type	type return value: tbl_graph: return tbl_graph object igraph: return igraph object list: return a list of nodes and edges
x	a cor_network object.
n	number of rows to show.
...	extra params for printing.

Value

a tbl_graph (default), igraph or list of nodes and edges.

Author(s)

Houyun Huang, Lei Zhou, Jian Chen, Taiyun Wei

Examples

cor_network(cor(mtcars))
corr <- correlate(mtcars, cor.test = TRUE)
cor_network(corr$r, corr$p.value)

## return a igraph object
cor_network(corr$r, corr$p.value, val.type = "igraph")

## reurn a tbl_graph object
cor_network(corr$r, corr$p.value, val.type = "tbl_graph")

houyunhuang/ggcor documentation built on July 22, 2020, 8:31 p.m.