Display a CC

Display a CC

Connected Components infos

buildGraph(cc = NULL, meta = NULL)

display.CC.visNet(g = NULL, layout = "layout_with_fr")

plotCCJitter(df, clickFunction = NULL)

GetCCInfos(cc)

Arguments

cc

A list of connected component

meta

A data.frame()

g

An instance of a graph

layout

A character(1) which i the layout used in visNetwork. Default value is 'layout_with_fr'

df

A data.frame()

clickFunction

A JS function to determine the behaviour of a click

Value

A list

A plot

A plot

A list of three items:

• One_One: the number of cc composed of one protein and one peptide

• One_Multi: the number of cc composed of one protein and several peptides

• Multi_Multi: the number of cc composed of several proteins and several (shared) peptides.

Author

Thomas Burger, Samuel Wieczorek

Examples

data(sub_R25)
se <- sub_R25[[1]]
g <- buildGraph(get_cc(se)[[1]])
display.CC.visNet(g)


data(sub_R25)
GetCCInfos(get_cc(sub_R25[[1]]))
#> $One_One
#> $One_One[[1]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     1017
#> 161    1
#> 
#> $One_One[[2]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     1206
#> 157    1
#> 
#> $One_One[[3]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     1262
#> 159    1
#> 
#> $One_One[[4]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     1574
#> 169    1
#> 
#> $One_One[[5]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     1652
#> 154    1
#> 
#> $One_One[[6]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     1819
#> 151    1
#> 
#> $One_One[[7]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     1969
#> 158    1
#> 
#> $One_One[[8]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     238
#> 155   1
#> 
#> $One_One[[9]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     3
#> 167 1
#> 
#> $One_One[[10]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     30
#> 156  1
#> 
#> $One_One[[11]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     379
#> 165   1
#> 
#> $One_One[[12]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     498
#> 164   1
#> 
#> $One_One[[13]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     661
#> 160   1
#> 
#> $One_One[[14]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     723
#> 150   1
#> 
#> $One_One[[15]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     826
#> 168   1
#> 
#> $One_One[[16]]
#> 1 x 1 sparse Matrix of class "dgCMatrix"
#>     829
#> 149   1
#> 
#> 
#> $One_Multi
#> $One_Multi[[1]]
#> 2 x 1 sparse Matrix of class "dgCMatrix"
#>     120
#> 152   1
#> 153   1
#> 
#> 
#> $Multi_Multi
#> $Multi_Multi[[1]]
#> 2 x 2 sparse Matrix of class "dgCMatrix"
#>     1578 1577
#> 162    1    1
#> 163    1    .
#> 
#> $Multi_Multi[[2]]
#> 1 x 2 sparse Matrix of class "dgCMatrix"
#>     1685 2260
#> 166    1    1
#> 
#>