Estimated effects:
-----------------
est SE t
Intercept 56.773 3.364 16.875
3@60 -9.908 3.639 -2.723
6@93.0 13.777 3.581 3.847
I want to know that if " est " column does the same meaning of "Additive effect" of Qtls? I mean for example the addetive effects of 6th chromosome is 13.777?
Or I am in the wrong way and I misunderstand ?
Thank you in advance ,
best regards
Zahra Pakbaz
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Estimated effects:
-----------------
est SE t
Intercept 56.773 3.364 16.875
3@60 -9.908 3.639 -2.723
6@93.0 13.777 3.581 3.847
My question is if the " est " column shows the additive effects of QTLs or not ? for example, the additive effects of chromosome 6 is 13.777 ?
Best regards,
Zahra Pakbaz
To view this discussion on the web visit https://groups.google.com/d/msgid/rqtl-disc/E9908C2E-256D-4A78-BE74-6A269C57685E%40gmail.com.
The estimated QTL effects for a backcross are derived by the coding scheme +/- 1/2 for AA and AB, so that the additive effect corresponds to the difference between phenotype averages for the two genotypes. For doubled haploids and RIL, the coding scheme is +/- 1 for AA and BB, so that the additive effect corresponds to half the difference between the phenotype averages for the two homozygotes.
For an intercross, the additive effect is derived from the coding
scheme -1/0/+1 for genotypes AA/AB/BB, and so is half the difference
between the phenotype averages for the two homozygotes. The dominance
deviation is derived from the coding scheme 0/+1/0 for genotypes
AA/AB/BB, and so is the difference between the phenotype average for
the heterozygotes and the midpoint between the phenotype averages for
the two homozygotes.
karl
Full model result
----------------------------------
Model formula: y ~ Q1 + Q2
df SS MS LOD %var Pvalue(Chi2) Pvalue(F)
Model 2 50376.02 25188.009 4.94745 11.35668 1.128626e-05 1.352325e-05
Error 186 393204.65 2114.003
Total 188 443580.67
Estimated effects:
-----------------
est SE t
Intercept 56.773 3.364 16.875
3@60.0 -9.908 3.639 -2.723
6@93.0 13.777 3.581 3.847
I want to know that if " est " column does the same meaning of "Additive effect" of Qtls? or I should use another script to estimate additive effects of QTL?
Best regards,
zahra pakbaz
To view this discussion on the web visit https://groups.google.com/d/msgid/rqtl-disc/3dbed0fa-d7fd-4684-856a-a9c20ef1e784n%40googlegroups.com.