Assess list of synteny networks as in assess_synnet
Arguments
- synnet_list
A list of networks, each network being an edge list as a 2-column data frame, with columns 1 and 2 representing names of loci in anchor 1 and anchor 2, respectively.
- cc_type
Type of clustering coefficient to be calculated. One of 'global' or 'average'. Default: 'average'.
Value
A data frame with the following variables:
- CC
Numeric representing clustering coefficient.
- Node_count
Numeric representing number of nodes in the network.
- Rsquared
Numeric indicating the coefficient of determination for the scale-free topology fit.
- Score
Numeric representing network score, which is the product of 'CC' and 'Node_number'.
- Network
Character of network name.
Examples
set.seed(123)
data(synnet)
net1 <- synnet
net2 <- synnet[-sample(1:10000, 500), ]
net3 <- synnet[-sample(1:10000, 1000), ]
synnet_list <- list(net1 = net1, net2 = net2, net3 = net3)
assess_synnet_list(synnet_list)
#> CC Node_count Rsquared Score Network
#> 1 0.8779120 149144 0.6806854 89125.76 net1
#> 2 0.8769428 149133 0.6813367 89105.97 net2
#> 3 0.8758974 149114 0.6810978 88957.20 net3