Difference between revisions of "Genotype Likelihood Based Allele Balance"
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:<math> | :<math> | ||
− | nref_i = 0.5 * | + | nref_i = 0.5 * depth_i * (1 + {(lss_i - lrr_i)\over lss_i + lrr_i - 2 * lrs_i + 6 * depth_i}) \ |
</math> | </math> | ||
Latest revision as of 15:22, 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.