analyze_population: Calculate stochastic epi mutations from a methylation dataset...

In drake69/semseeker: Stochastic Epigenetic Mutations SEM Seeker

Calculate stochastic epi mutations from a methylation dataset as outcome report of pivot

Description

Calculate stochastic epi mutations from a methylation dataset as outcome report of pivot

Usage

analyze_population(
  methylation_data,
  sliding_window_size,
  sample_sheet,
  beta_thresholds,
  bonferroni_threshold = 0.05,
  probe_features
)

Arguments

methylation_data	whole matrix of data to analyze.
sliding_window_size	size of the sliding widows to compute epilesions default 11 probe_features.
sample_sheet	name of samplesheet's column to use as control population selector followed by selection value,
beta_thresholds	thresholds defined to calculate epimutations lesions definition
bonferroni_threshold	threshold to define which pValue accept for
probe_features	probe_features detail from 27 to EPIC illumina dataset

Value

files into the result folder with pivot table and bedgraph.

drake69/semseeker documentation built on Sept. 17, 2023, 12:22 a.m.