RAdat2: A simulated methylation dataset based on a real data.

In kaiqiong/SOMNiBUS: Smooth modeling of bisulfite sequencing

A simulated methylation dataset based on a real data.

Description

This example data include methylation levels on a region with 208 CpGs for 116 blood samples.

Usage

RAdat2

Format

A data frame of 6064 rows and 13 columns. Each row represents a CpG site for a sample. Columns include in order:

Meth_Counts

Number of methylated reads

Total_Counts

Total number of reads; read-depth

Position

Genomic position (in bp) for the CpG site

ID

indicates which sample the CpG site belongs to

ACPA4

binary indicator for a biomarker anti-citrullinated protein antibody

Age

Age

Sex

2-female; 1-male

Smoking

1-current or ex-smoker; 0-non-smoker

Smoking_NA

1-Smoking info is NA; 0-Smoking info is available

PC1

PC1 for the cell type proportions

PC2

PC2 for the cell type proportions

PC3

PC3 for the cell type proportions

PC4

PC4 for the cell type proportions

Source

simulation is based a real data set provided by PI Dr. Sasha Bernatsky (McGill University)

kaiqiong/SOMNiBUS documentation built on Feb. 24, 2023, 5:38 a.m.