readtuples_output {DAMEfinder} | R Documentation

## read_tuples() output.

### Description

3 Patients from a previous study (Parker et al, 2018.) with colorectal cancer were sequenced and the normal and cancerous tissue of each patient was obtained. The data includes a subset of chromosome 19. Here one normal sample is not included.

### Usage

    readtuples_output

### Format

A large list with 5 elements. Each element is a `tibble` with the coordinates of the pairs of CpG sites (tuples). Rest of the tibble contains:

`MM`

  Number of reads with both CpG sites methylated

`MU`

  Number of reads with first CpG site methylated

`UM`

  Number of reads with second CpG site methylated

`UU`

  Number of reads with both CpG sites unmethylated

`cov`

  Coverage, total reads at tuple

`inter_dist`

  Distance in bp between CpG sites

For further details, see https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-6949/ sample names in in ArrayExpress do not necessarily match names given here!

[Package DAMEfinder version 1.6.0 Index]