Difference between revisions of "Genotype Likelihood Based Allele Balance"
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− | nref = | + | nref = 0.5 * depth * {1 + (lss - lrr)\over(lss + lrr - 2 * lrs + 6 * depth))} \ |
</math> | </math> | ||
Revision as of 15:18, 22 October 2010
A statistic developed by Dr. Tom Blackwell.
Inputs
- depth
- at each site
- lrr
- phred-scaled likelihood of observed bases given reference genotype
- lsr
- phred-scaled likelihood of observed bases given heterozygous genotype
- lss
- phred-scaled likelihood of observed bases given non-reference genotype
Calculation
Points
Three points for correctly deciphering why this formula works.