A correction of the local pooled error (LPE) method to replace the asymptotic variance adjustment with an unbiased adjustment based on sample size.


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Documentation for package ‘LPEadj’ version 1.2.0

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adjBaseOlig.error Evaluates LPE variance function of M for quantiles of A within and experimental condition and then interpolates it for all genes.
adjBaseOlig.error.step1 Evaluates LPE variance function of M for quantiles of A within and experimental condition by divinding the A in 100 intervals.
adjBaseOlig.error.step2 Evaluates LPE variance function of M for quantiles of A within and experimental condition. It is based on the adaptive number of intervals.
calculateLpeAdj Evaluates local pooled error significance test with user chosen variance adjustments.
getCols Get number of replicates from character vector
lpeAdj High level lpeAdj function that executes the adjusted local pooled error significance test. If more control over parameters is needed then see documentation for calculateLpeAdj.