Figure 3.

Hapmap P-values versus read depth. A plot of P-value versus the log base 10 of the average count for each gene using the six different analysis strategies applied to randomly labeled samples. In each case the P-values should be uniformly distributed between zero and one. (a) Poisson model, 75th percentile normalization. (b) Poisson model, 75th percentile included as term. (c) Gaussian model, 75th percentile normalization. (d) Gaussian model, 75th percentile included as term. (e) Permutation model, 75th percentile normalization. (f) Permutation model, 75th percentile included as term.

Langmead et al. Genome Biology 2010 11:R83   doi:10.1186/gb-2010-11-8-r83
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