From 4e53d6c6f61c402b296cec28964999b69a987ab9 Mon Sep 17 00:00:00 2001
From: camaclean <camaclean@users.noreply.github.com>
Date: Tue, 22 Aug 2017 10:27:46 -0500
Subject: [PATCH] Update main-ehh.cpp

Change the EHH minimum MAF to 0.0, as the cutoff isn't necessary when looking at single loci.
---
 src/main-ehh.cpp | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/src/main-ehh.cpp b/src/main-ehh.cpp
index 7b499b4..45ddf19 100644
--- a/src/main-ehh.cpp
+++ b/src/main-ehh.cpp
@@ -33,7 +33,7 @@ int main(int argc, char** argv)
     Argument<const char*> hap('d', "hap", "Hap file", false, false, "");
     Argument<const char*> map('m', "map", "Map file", false, false, "");
     Argument<double> cutoff('c', "cutoff", "EHH cutoff value (default: 0.05)", false, false, 0.05);
-    Argument<double> minMAF('b', "minmaf", "Minimum allele frequency (default: 0.05)", false, false, 0.05);
+    Argument<double> minMAF('b', "minmaf", "Minimum allele frequency (default: 0.05)", false, false, 0.00);
     Argument<unsigned long long> scale('s', "scale", "Gap scale parameter in bp, used to scale gaps > scale parameter as in Voight, et al.", false, false, 20000);
     Argument<bool> binom('a', "binom", "Use binomial coefficients rather than frequency squared for EHH", true, false);
     Argument<unsigned long long> maxExtend('e', "max-extend", "Maximum distance in bp to traverse when calculating EHH (default: 0 (disabled))", false, false, 0);