Support for nonBismark results

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Shaojun Xie edited this page Sep 2, 2017 · 3 revisions

BRAT

perl lib/scripts/brat2bismark.pl

Usage:
    perl brat2bismark.pl <brat methlation output> <Minimum depth> <Output file>

BS seeker2

Usage

perl lib/scripts/bsseeker2bismark.pl

Usage:

    perl bsseeker2bismark.pl <BSseeker2 CGmap> <Minimum depth> <Output file>

Example

cat data/bsseeker_CGmap.tab
chr1    G       3000851 CHH     CC      0.1     1       10
chr1    C       3001624 CHG     CA      0.0     0       9
chr1    C       3001631 CG      CG      1.0     5       5
chr1    C       3001690 --      --      1.0     5       5

perl bsseeker2bismark.pl bsseeker_CGmap.tab 1 bsseeker2bismark_res.rep.txt