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conet-settings.txt
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conet-settings.txt
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# CoNet template file
method==ensemble
randroutine==edgeScores
matrixtype==abundance
thresholdguessing==edgeNumber
guessingparam==1000.0
resamplemethod==shuffle_rows
#ensemblemethods==correl_pearson/correl_spearman/sim_mutInfo/dist_bray/dist_kullbackleibler
ensemblemethods==correl_pearson
format==gdl
stand==col_norm
minetdisc==equalfreq
minetmiestimator==mi.shrink
kernelwidth==0.25
lineage_separator==--
edgethreshold==0.05
nantreatment==pairwise_omit
nantreatmentparam==50
networkmergestrategy==union
mi_implementation==jsl
iterations==100
inputformat==biomtable
delimiter==tab
multicorr==none
multigraph==true
higherleveltaxa==true
scoreexport==true
transposefeatures==true
matchfeaturesamples==true
topbottom==true
renorm==true
no_rserve==true
keepfilteredrows==true
filter==row_minocc/noinclusivetaxalinks/rand
filterparameter==20.0
verbosity==FATAL
correlnonrandp==none
inference==mrnet
min==1
max==3
measure2==supp
measure1==conf
scoremergestrategy==mean
minsupport==2