get_stats: Summarize regions

In geneticsMiNIng/metR: Tools for Identification and Visualisation of Differentially Methylated Regions

Description

Summarize regions by minimum, maximum, mean, standard deviation of methylation rate in two probes and methylation diff rate withib two probes and estimated quantile basen od methylation diff rate

Usage

get_stats(data)

Arguments

data	dataframe with specific columns: chr, poz, prob, no, meth, unmeth, meth.rate, tiles and possible tiles.common columns. This dataframe is result of function create_tiles_min_gap or create_tiles_fixed_length

Value

data.frame which is summing-up regions specifed by tiles and tiles.common columns in data

Examples

data('schizophrenia')
control <- schizophrenia %>% filter(category == 'control') %>%
dplyr::select(-category)

disease <- schizophrenia %>% filter(category == 'disease') %>%
 dplyr::select(-category)

data <- preprocessing(control, disease)
data.tiles <- create_tiles_max_gap(data, gaps.length = 100)
head(get_stats(data.tiles))

geneticsMiNIng/metR documentation built on May 28, 2019, 8:41 p.m.