filteredASRcounts {ISoLDE} | R Documentation

## NORMALIZED AND FILTERED ALLELE SPECIFIC READ (ASR) COUNTS FOR AN EXPERIENCE WITH MORE THAN TWO REPLICATES

### Description

A `data.frame` containing the normalized and filtered values of allele specific read counts, for an experiment with more than two replicates. This `data.frame` is obtained with the `filterT` function run on the `normASRcounts` `data.frame`.

### Format

A `data.frame`.

### Details

This `data.frame` is obtained with the `filterT` function. Each line represents a feature (e.g. a gene, transcript). Each column represents the number of allele specific sens reads from either the paternal or maternal parent for a given biological replicate, so that you expect to have two columns per biological replicate. Values in the matrix are filtered and normalized (RLE method) ASR counts.

### Source

Extract from Bouschet, T. et al. (2016): In vitro corticogenesis from embryonic stem cells recapitulates the in vivo epigenetic control of imprinted gene expression. Submitted Subset of 6062 genes (after filtering).

### References

Bouschet, T. et al. (2016): In vitro corticogenesis from embryonic stem cells recapitulates the in vivo epigenetic control of imprinted gene expression. Submitted

### See Also

`filterT`: a function to filter the ASR counts and produce the `filteredASRcounts`
`data.frame`.
`isolde_test`: example of which uses `filteredASRcounts`.

### Examples

       data(filteredASRcounts)

[Package ISoLDE version 1.18.1 Index]