In

multiqc_data

folder, there are multiple files with methylation information with identical columns but the values are different. Where do they come from and why are they different? For example:

multiqc_bismark_alignment = read_tsv("multiqc_bismark_alignment.txt")
multiqc_bismark_methextract = read_tsv("multiqc_bismark_methextract.txt")

> bind_cols(multiqc_bismark_alignment %>% select(percent_cpg_meth), multiqc_bismark_methextract %>% select(percent_cpg_meth))
   percent_cpg_meth...1 percent_cpg_meth...2
                  <dbl>                <dbl>
 1                 37.1                 48.2
 2                 38.4                 47.7
 3                 40                   45.9
 4                 37.1                 45.9
 5                 40.9                 44.4
 6                 36.7                 45.8
 7                 38.1                 43.8
 8                 40.5                 47.5
 9                 40.5                 46.6
10                 37.1                 45.8
11                 35.6                 43.5
12                 39.1                 45.4
13                 37                   42.6
14                 38.3                 45.4
15                 37.9                 46.5
16                 38.4                 45.8
17                 38.7                 44.5
18                 40.2                 45.6