testDAUresults-class: Class 'testDAUresults'.

In jianhong/dagLogo: dagLogo: a Bioconductor package for visualizing conserved amino acid sequence pattern in groups based on probability theory

Class testDAUresults.

Description

An S4 class to represent a DAU statistical test result from dagLogo analysis.

Slots

group

A character vector of length 1, the type of method for grouping amino acid.

testType

A character vector of length 1, the type of statistic testing. The available options are "fisher" and "z-test".

difference

A numeric matrix consisting of differences of amino acid proportions between the test set and the background set of aligned, formatted peptides at each position.

statistics

A numeric matrix consisting of Z-scores or odds ratios for Z-test and Fisher's exact test, respectively.

pvalue

A numeric matrix consisting of p-values.

background

A numeric matrix consisting of amino acid proportions in the background set of aligned, formatted peptides at each position.

motif

A numeric matrix consisting of amino acid proportions at each position for visualization by dagLogo.

upstreamOffset

A positive integer, the upstream offset relative to the anchoring position.

downstreamOffset

A positive integer, the upstream offset relative to the anchoring position.

Author(s)

Jianhong Ou, Haibo Liu

jianhong/dagLogo documentation built on June 8, 2025, 2:07 a.m.