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Diffstat (limited to 'doc/manual.tex')
| -rw-r--r-- | doc/manual.tex | 4 |
1 files changed, 2 insertions, 2 deletions
diff --git a/doc/manual.tex b/doc/manual.tex index 7021e3c..d6e33fe 100644 --- a/doc/manual.tex +++ b/doc/manual.tex @@ -404,10 +404,10 @@ rs1, A, T, 0.02, 0.80, 1.50 rs2, G, C, 0.98, 0.04, 1.00 \end{verbatim} % -GEMMA codes alleles exactly as provided in the mean genotype file, and +GEMMA codes alleles exactly as provided in the BIMBAM mean genotype file, and ignores the allele types in the second and third columns. Therefore, the minor allele is the effect allele only if one codes minor allele -as 1 and major allele as 0. +as 2 and major allele as 0. Missing genotypes are represented as ``NA'' values. |