bonferroni correction code from scratch r

#Bonferroni correction code from scratch r full

Most of the time with large arrays is spent in argsort. In MonteĬarlo experiments the method worked correctly and maintained the falseĪll procedures that are included, control FWER or FDR in the independentĬase, and most are robust in the positively correlated case.įdr_gbs: high power, fdr control for independent case and only small The ‘fdr_gbs’ procedure is not verified against another package, p-valuesĪre derived from scratch and are not derived in the reference. The corrected p-values are specific to the given alpha, see In these cases the corrected p-valuesĬan also be compared with a different alpha. There may be API changes for this function in the future.Įxcept for ‘fdr_twostage’, the p-value correction is independent of theĪlpha specified as argument. P-values corrected for multiple tests alphacSidak floatĬorrected alpha for Sidak method alphacBonf float True for hypothesis that can be rejected for given alpha pvals_corrected ndarray Not tested, return sorted p-values instead of original sequence Returns : ¶ reject ndarray, bool Pvalues are already sorted in ascending order. If False (default), the p_values will be sorted, but the corrected Prior fraction of assumed true hypotheses. Maxiter=0 uses only a single stage fdr correction using a ‘bh’ or ‘bky’

#Bonferroni correction code from scratch r full

Maxiter=-1 corresponds to full iterations which is maxiter=len(pvals). Maxiter=1 (default) corresponds to the two stage method. Maximum number of iterations for two-stage fdr, fdr_tsbh andįdr_tsbky. Hommel : closed method based on Simes tests (non-negative)įdr_bh : Benjamini/Hochberg (non-negative)įdr_tsbh : two stage fdr correction (non-negative)įdr_tsbky : two stage fdr correction (non-negative) Simes-hochberg : step-up method (independent) Holm : step-down method using Bonferroni adjustments

Holm-sidak : step down method using Sidak adjustments Can be either theįull name or initial letters. Method used for testing and adjustment of pvalues. alpha floatįWER, family-wise error rate, e.g. Test results and p-value correction for multiple tests Parameters : ¶ pvals array_like, 1-d multipletests ( pvals, alpha = 0.05, method = 'hs', maxiter = 1, is_sorted = False, returnsorted = False ) ¶

Multiple Imputation with Chained Equations.

Basic Statistics and t- Tests with frequency weights.Multiple Tests and Multiple Comparison Procedures Multiple Tests and Multiple Comparison Procedures