# demo settings file to compute distribution-free permutation-based p-values for Pearson 
# please set correct paths to the demo files!
input==Costello_2009_oral.txt
metadata==Costello_2009_oral_metadata.txt
metadataattribs==bodysite/taxon
ensemblemethods==correl_pearson
multigraph==true
# preprocessing
filterparameter==5.0
stand==col_norm
# threshold guessing
thresholdguessing==edgeNumber
guessingparam==500.0
# missing value handling
nantreatment==pairwise_omit
nantreatmentparam==5
# randomization
filter==row_minocc/rand
iterations==100
randroutine==edgeScores
resamplemethod==shuffle_rows
edgethreshold==0.05
multicorr==benjaminihochberg