nb_proportion: This function determines the proportion of p-values below a...

In compbiomed/BatchQC: Batch Effects Quality Control Software

This function determines the proportion of p-values below a specific value and compares to the previously determined threshold of 0.42 for extreme low values.

Description

This function determines the proportion of p-values below a specific value and compares to the previously determined threshold of 0.42 for extreme low values.

Usage

nb_proportion(
  adj_p_val_table,
  p_val_table,
  low_pval = 0.01,
  threshold = 0.42,
  num_samples
)

Arguments

adj_p_val_table	table of adjusted p-values from the nb test
p_val_table	table of p-values from the nb test
low_pval	value of the p-value cut off to use in proportion
threshold	the value to compare the proportion of p-values to for data sets less than 20, default is 0.42
num_samples	the number of samples in the analysis

Value

a statement about whether DESeq2 is appropriate to use for analysis

compbiomed/BatchQC documentation built on Nov. 16, 2024, 5:47 a.m.