dmrs.ex: dmrs.ex: Example results of DMRs

In kdkorthauer/dmrseq: Detection and inference of differentially methylated regions from Whole Genome Bisulfite Sequencing

dmrs.ex: Example results of DMRs

Description

Example output from dmrseq function run on the example dataset BS.chr21.

Usage

data(dmrs.ex)

Format

a data.frame that contains the results of the inference. The data.frame contains one row for each candidate region, and 10 columns, in the following order: 1. chr = chromosome, 2. start = start basepair position of the region, 3. end = end basepair position of the region, 4. indexStart = the index of the region's first CpG, 5. indexEnd = the index of the region's last CpG, 6. L = the number of CpGs contained in the region, 7. area = the sum of the smoothed beta values 8. beta = the coefficient value for the condition difference, 9. stat = the test statistic for the condition difference, 10. pval = the permutation p-value for the significance of the test statistic, and 11. qval = the q-value for the test statistic (adjustment for multiple comparisons to control false discovery rate).

Source

Obtained from running the examples in dmrseq. A script which executes these steps and constructs the dmrs.ex object may be found in ‘inst/scripts/get_dmrs.ex.R’

Examples

data(dmrs.ex)

kdkorthauer/dmrseq documentation built on Sept. 26, 2024, 9:32 p.m.