Parameter	Desc	Min	Max	Set Value
maxExpr	for any gene, if its maximum expression is less than maxExpr, then this gene will be filtered	-100	500
sampleSize	the size of the random sample used for determining the gene distance threshold	20	200
CVThr	the threshold of CV (coefficient of variance) for filtering genes (genes whose CV < this value will be skipped)	0	100
stepSize	step size of k	0	100
percentile	the parameter used for determining the gene distance threshold	0	1
minClusterSize	cutoff for cluster size	0	100
comemThr	the threshould for comembership score (if less than this threshold, then the two genes will not be connected in the graph)	0	100
numIterations	number of times to run K-means for each value of k	0	1000
kmeansSamplingRatio	percent of genes sampled for k-means	0	100
stoppingThr	when to stop K-means algorithm, expressed as the percent change of the objective function in two consective iterations of K-means	0	100
kmin	minimum value of k to be used for K-means	0	100
kmax	maximum value of k to be used fro K-means	0	100
refMaxExpr	for any gene, if its maximum expression is less than maxExpr, then this gene will be filtered	-100	200
refCVThr	the threshold of CV (coefficient of variance) for filtering genes (genes whose CV < this value will be skipped)	0	100
minOutputClusterSize	only the clusters whose size is at least this value will be output	1	100

Parameter	Desc	Sample File	Upload File
exprFile	The microarray data file	Celegans-aging-filtered.txt
refExprFile	The microarray data file for another species	Fly-aging-filtered.txt
orthologFile	ortholog mapping file	orth_fly_elegans.txt