div_culculate: Calculate a bipartite network for microbiome data
In taowenmicro/ggClusterNet:

div_culculate

R Documentation

Calculate a bipartite network for microbiome data

Description

Calculate a bipartite network for microbiome data

Usage

div_culculate(
  table = result[[3]],
  distance = 1.1,
  distance2 = 1.5,
  distance3 = 1.3,
  order = FALSE
)

Arguments

`table`	ven output
`distance`	core distance to group
`order`	TRUE or FEASE
`flour`	Is the arrangement of points discrete? TRUE or FEASE would be selected

Value

list

Author(s)

Contact: Tao Wen 2018203048@njau.edu.cn Jun Yuan junyuan@njau.edu.cn Penghao Xie 2019103106@njau.edu.cn

References

Yuan J, Zhao J, Wen T, Zhao M, Li R, Goossens P, Huang Q, Bai Y, Vivanco JM, Kowalchuk GA, Berendsen RL, Shen Q Root exudates drive the soil-borne legacy of aboveground pathogen infection Microbiome 2018,DOI: doi: 10.1186/s40168-018-0537-x

Examples

data(ps)
ps_sub = filter_taxa(ps, function(x) sum(x ) > 20 , TRUE)
ps_sub = filter_taxa(ps_sub, function(x) sum(x ) < 30 , TRUE)
ps_sub

result = div_network(ps_sub,num = 6)

edge = result[[1]]
head(edge)
result <- div_culculate(table = result[[3]],distance = 1.1,distance2 = 1.5,distance3 = 1.3,order = FALSE)

taowenmicro/ggClusterNet documentation built on March 29, 2024, 1:32 a.m.