sample_p_null_tallies: Tallies of p-values from resampling

In naglemi/mtmcskat: Multi-Threaded Monte Carlo Sequence Kernel Association Test (MTMC-SKAT)

Tallies of p-values from resampling

Description

This dataset features tallies of permuted null model p-values that are above or below the model p-value that was obtained from a null model without resampling. The sums of p-values above or below this model p-value can be used to calculate an empirical p-value. There is a row for each SNP window, thread combination, since SNP windows are tested on all threads using different null models on each thread. This sample dataset was obtained from mtmcskat_NullModels, which multithreads Monte Carlo SKAT over null models.

Usage

sample_p_null_tallies

Format

A data frame with 192 rows and 4 variables

position

Integer indicating, in base pairs, the center of a SNP window

SKAT_p-val

Numeric value (double) indicating the original p-value for the given SNP window, obtained by SKAT without resampling

n_perm_above

The number of permuted p-values from a given thread that are above the original p-value for a given window

n_perm_ltoreq

The number of permuted p-values from a given thread that are below the original p-value for a given window

naglemi/mtmcskat documentation built on Aug. 23, 2023, 5:35 p.m.