From 49d976ba6b58568bad2aac9e3cc6787b27975d69 Mon Sep 17 00:00:00 2001 From: Matthew Mah Date: Tue, 22 Jun 2021 11:15:08 -0400 Subject: [PATCH] Nick's changes for 7.0.2 --- README.qpfstats | 9 ++++++++- 1 file changed, 8 insertions(+), 1 deletion(-) diff --git a/README.qpfstats b/README.qpfstats index be50b63..39d56e5 100644 --- a/README.qpfstats +++ b/README.qpfstats @@ -13,9 +13,16 @@ genotypename: DIR/S1.geno allsnps: YES ## default NO -- dangerous bend inbreed: NO -## default NO +## default (match allsnps:) scale: NO ## default YES -- when fstats are scaled to "match" fst in least squares sense +*** strongly advuse to specify allsnp: and inbreed: in the paramter file. + +If inbreed: NO the base population (first in poplistname) MUST be a true diploid. +inbreed: NO when there are pseudo-diploid populations is dubious but may be necessary, + especially if there is a population with a single sample. In this case some f2 statistics + can't be evaluated and are set in the output to have huge variance (100). This means + that in qpGraph some tail edges are set 0 -- really are undertermined. qpfmv -----