PDseDataSetFromMat: PDseDataSet from rMATs/PAIRADISE Mat format

In hubentu/PAIRADISE: PAIRADISE: Paired analysis of differential isoform expression

Description

The Mat format should have 7 columns, arranged as follows: Column 1 contains the ID of the alternative splicing events. Column 2 contains counts of isoform 1 corresponding to the first group. Column 3 contains counts of isoform 2 corresponding to the first group. Column 4 contains counts of isoform 1 corresponding to the second group. Column 5 contains counts of isoform 2 corresponding to the second group. Column 6 contains the effective length of isoform 1. Column 7 contains the effective length of isoform 2. Replicates in columns 2-5 should be separated by commas, e.g. "1623,432,6" for three replicates and the replicate order should be consistent for each column to ensure pairs are matched correctly.

Usage

PDseDataSetFromMat(dat)

Arguments

dat	The Mat format dataframe.

Value

A PDseDataSet object

Examples

data("sample_dataset")
pdat <- PDseDataSetFromMat(sample_dataset)

hubentu/PAIRADISE documentation built on Oct. 4, 2020, 4:27 a.m.