chipseeker annotation of focused genic regions
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Wojeff • 0
@wojeff-14309
Last seen 2.6 years ago

I am attempting to annotate some ChIP-Seq data that I have called using MACS2. I just want to annotation peaks to specific regions, such as following classes : promoter, 5’ untranslated region (UTR), 3’ UTR, coding exon and intron),and intergenic regions from gtf file( convert to 'TxDB'). However,  the result always output annotations  to regions which i do not care about, like first intron, first exon and downtream 3000. How to set my focused regions?

chipseeker annotatepeak • 826 views
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Guangchuang Yu ★ 1.2k
@guangchuang-yu-5419
Last seen 3 months ago
China/Guangzhou/Southern Medical Univer…

first exon belongs to exon.

first intron belongs to intron.

downstream belongs to intergenic.

You can simply convert 1st exton to exon etc.

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