multiARS_pathway: Resemblance analysis for multiple pairs: pathway specific ARS...
In matianzhou/CAMO: Perform congruent analysis among model organisms

Description Usage Arguments Value Examples

Resemblance analysis for multiple pairs: pathway specific ARS and their permuted p-value The multiARS_pathway is function to perform resemblance analysis for multiple pairs, generating pathway specific ARS and their permuted p-value.

1 2	multiARS_pathway(mcmc.merge.list, dataset.names, select.pathway.list, measure = "Fmeasure", parallel = F, cpu = 2, B = 50)

`mcmc.merge.list:`	a list of merged MCMC output matrices.
`dataset.names:`	a vector of dataset names.
`select.pathway.list:`	a list of selected pathways (containing gene components).
`measure:`	three types of ARS measures to be used: "youden", "Fmeasure","geo.mean". Default is "Fmeasure".
`parallel:`	whether to perform parallel computing in permutation.
`cpu:`	if parallel=T, how many cpus to be used.
`B:`	number of permutations.

a list of two data frames: pathway specific ARS values and their permuted p-value (pathway on rows, column being ARS value or the p-values), in addition, both are written to the folder named "arsPathway".

## Not run: 
#mcmc.merge.list from the merge step (example 2)
#select.pathway.list from the pathSelect step
dataset.names <- c("hb","hs","ht","mb","ms","mt")
ARS_pathway <- multiARS_pathway(mcmc.merge.list,dataset.names,
select.pathway.list,B=100)

## End(Not run)