TPRall: TPR for all of the re or ac types of edges

In netmes: Exploratory Analysis of Gene Networks with Netmes, An R package for network-based measures

Description

This function takes the object that is the result of evalnetworks or evalnetworknames. It results the True positive rate (TPR) of edges for respressor and activator types.

Usage

TPRall(res)

Arguments

res	Object that is the result of evalnetworks or evalnetworknames.

Details

It only considers ac and re edges.

Value

TPRall returns an object of class '"TPRs"' which is a list with components:

TPReALL	TPR of all edges.
TPReALLac	TPR of ac types of edges.
TPReALLre	TPR of re types of edges.

References

Gokmen Altay and Frank Emmert-Streib. Revealing differences in gene network inference algorithms on the network level by ensemble methods. Bioinformatics, 2010, 26(14),1738-1744.

Frank Emmert-Streib, Gokmen Altay. Local network-based measures to assess the inferability of different regulatory networks. IET Syst. Biol. 2010, Volume 4, Issue 4, p.277-288.

See Also

plotMotifs, evalnetworks, evalnetworksNames

Examples

# E <- 5 # number of experiments (data sets)

# infile <- "./netmes/data/networkDAG.sif"
# infilepath <- "./netmes/data/syn/"
# This is an example path. Change this path wrt the path of data in your computer.

# net <- readNet(infile, infilepath)   # true network (+1 edge/ activator - -1 edges/repr.)


# res <- evalnetworks(E, net, infilepath)

# TPRs <- TPRall(res)  #also save the fig

netmes documentation built on May 2, 2019, 5:21 p.m.