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Nick's changes for 7.0.2
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MatthewMah committed Jun 22, 2021
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9 changes: 8 additions & 1 deletion README.qpfstats
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Expand Up @@ -13,9 +13,16 @@ genotypename: DIR/S1.geno
allsnps: YES
## default NO -- dangerous bend
inbreed: NO
## default NO

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@coldbertray

coldbertray Feb 16, 2022

yes

## 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
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