GenomicTiles-class {GenoGAM} | R Documentation

## GenomicTiles class

### Description

This class is designed to represent the entire genome (or a subset of it) and any additional data associated with the samples or positions. It extends the RangedSummarizedExperiment class and adds two additional index slots to keep track of the data. The main change compared to RangedSummarizedExperiment is the use of a GPos (basepair level) instead of GRanges (ranges level) object as rowRanges and the use of two GRanges objects as indices. The GPos object allows to store raw instead of summarized data in the assays. Because of this the size of genomic data can increase tremendously. Thus the GenomicTiles class automatically divides the data in (overlapping) tiles, making any operation on this data easy executable in parallel.

### Details

For all other slots see `SummarizedExperiment`.

### Slots

`index`

  A GRanges object that stores the tiles ranges and their index in the genome space. That is, ranges are the positions on the genome.

`coordinates`

  A GRanges object that stores the tiles ranges and their index in the DataFrame space. That is ranges are the row positions in the DataFrame.

### Author(s)

Georg Stricker georg.stricker@in.tum.de

[Package GenoGAM version 1.8.0 Index]