cooks_outlier_pval_histogram: P-value histogram for outlier features
In bryancquach/omixjutsu: Utilities for omics analysis tasks

cooks_outlier_pval_histogram

R Documentation

P-value histogram for outlier features

Description

Plot p-value histogram for Cook's distance-based feature outliers.

Usage

cooks_outlier_pval_histogram(
  dds_fit,
  dds_results,
  f_threshold = 99,
  fill_color = "gray30",
  fill_alpha = 1
)

Arguments

`dds_fit`	A DESeqDataSet object after model fitting.
`dds_results`	A DESeqResults object derived from `dds_fit`.
`f_threshold`	Percentile of the F distribution used as the cutoff for calling outliers.
`fill_color`	Plot bar color.
`fill_alpha`	Plot bar color alpha value.

Details

Obtains differential expression test p-values for features flagged as outliers based on a Cook's distance cutoff derived from the user-specified f_threshold. The F distribution that corresponds to f_threshold is parameterized by the differential exppression regression model design.