ABSSeq (version 1.2.0)

ABSDataSet: ABSDataSet object and constructors

Description

ABSDataSet object and constructors

Usage

ABSDataSet(counts, groups, normMethod=c("User", "total","quartile", "DESeq"), sfactors=0)

Arguments

counts

a matrix or table with at least two columns and one row,

groups

a factor with two groups, whose length should be equal with sample size

normMethod

method for estimating the size factors, should be one of 'User', 'total', 'quartile' and 'DESeq'. See normalFactor for description.

sfactors

size factors for 'User' method, self-defined size factors by user.

Value

Details

The function contructs an ABSDataSet object with counts table and groups. It also checks the structure of counts and groups.The ABSDataSet is a class, used to store the input values, intermediate calculations and results of an analysis of differential expression. It also contains information for the running time of an analysis.

Examples

groups <- factor(c("a","b"))
obj <- ABSDataSet(counts, groups)