Question: How to get metthylKit(or SMART2) input file ?
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gravatar for wangzer
3.3 years ago by
wangzer0
wangzer0 wrote:

I use Bismark to align and methylation_extractor, then i get the result file--*.deduplicated.sorted.sam

And how do I get the metthylKit(or SMART2) input file like this:

chrBase chr base strand coverage freqC freqT

chr21.9764539 chr21 9764539 R 12 25.00 75.00 chr21.9764513 chr21 9764513 R 12 0.00 100.00 chr21.9820622 chr21 9820622 F 13 0.00 100.00 chr21.9837545 chr21 9837545 F 11 0.00 100.00 chr21.9849022 chr21 9849022 F 124 72.58 27.42

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