covFile: Example coverage data set.

In alinaselega/BUMHMM: Computational pipeline for computing probability of modification from structure probing experiment data

Example coverage data set.

Description

A matrix containing 1800x6 entries of per nucleotide coverage information from structure probing experiments.

This matrix is provided as a reference for creating a SummarizedExperiment object for storing all structure probing data used by the BUMHMM package. See se for the example code.

Usage

    covFile

Format

A matrix containing the coverage information for each nucleotide position of a ribosomal RNA 18S obtained in a structure probing experiment using DMS as a probe, where:

1st column

control experimental replicate

2nd column

control experimental replicate

3rd column

control experimental replicate

4th column

treatment experimental replicate

5th column

treatment experimental replicate

6th column

treatment experimental replicate

Value

Coverage information per nucleotide.

References

Hector, R. D. et al. "Snapshots of pre-rRNA structural flexibility reveal eukaryotic 40S assembly dynamics at nucleotide resolution." Nucleic acids research (2014).

alinaselega/BUMHMM documentation built on March 2, 2024, 10 p.m.