vijaykumarmuley/findPvalueCutoff: Select Differentially Expressed Genes At False Positive Rate Less Than Five Percent

Differential gene expression analysis tools return a vector of p-values assigned to genes under study. P-values represent a probability of differential gene expression by chance. Genes with lower p-values are considered differentially expressed. Conventionally, p-value less than or equal to 0.05 are considered significant at 95 percent confidence level. However, this p-value cutoff does not work always and also affected by the sample size of the compared groups. This package provides sophesticated simulation-based p-value cutoff selection using permutation resampling technique. The estimated p-value cutoff expected to select differentially expressed genes with false positive rate less than five percent. This technique is data-driven and therefore avoid the biased selection of p-value. Though it is developed for selecting differentially expressed genes but in principle can be used for any data as long as results are in the form of p-value vector and need cutoff to reject null hypothesis.

Getting started

Package details

AuthorVijaykumar Yogesh Muley
MaintainerVijaykumar Yogesh Muley <vijay.muley@gmail.com>
LicenseArtistic-2.0
Version0.1.0
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("vijaykumarmuley/findPvalueCutoff")
vijaykumarmuley/findPvalueCutoff documentation built on Dec. 23, 2021, 3:11 p.m.