population	HSrats
build	3.4
genome.cache.dir	/data/HSrats/rats/genome_cache_oct/sdir/
phenotype.dir	/Net/fs1/groups/mott/Amelie/data_mining/
phenotype.file	final_mat.txt
phenotype	EAE
model	additive
model.formula	EAE ~ 1 + sex + batch
model.function	binomial
model.function.options	reduce.dmat=TRUE
num.perms	50
perm.seed	1
hi.signif	0.05
lo.signif	0.2
signif.method	permutation
peak.separation	ABOVE_THRESHOLD
rma.threshold.auto.adjust	TRUE
rma.optim.exclude	FALSE
rma.num.resamples	50
rma.replace	FALSE
rma.proportion.resampled	0.8
chromosomes	1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 X
boot.ci.search.radius	1cM
num.positional.boots	10
boot.min.rmapp	0.1
#rmapp.window.radius	
boot.seed	1
rmapp.window.radius	2.5cM 5cM 10cM