filteredASRcounts: NORMALIZED AND FILTERED ALLELE SPECIFIC READ (ASR) COUNTS FOR...

In ChristelleReynes/ISoLDE: Integrative Statistics of alleLe Dependent Expression

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)

ChristelleReynes/ISoLDE documentation built on Dec. 31, 2020, 10:59 a.m.