[ChIPseeker; feature request] More flexibility in specifying the TSS region
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balwierz ▴ 40
@balwierz-8583
Last seen 5.3 years ago
United Kingdom

It would be useful to have more flexibility in selecting the TSS region. It is currently hardcoded in getGenomicAnnotation that the region is subdivided into 1000 bp regions. For some marks and compact genomes it is too large.

I would like to have a way to specify bins myself, e.g. by specifying a list of breaks like in hist function.

Also: "downstream" category is hardcoded as +3000 bp.

 

PS. Good package and well-written documentation!

ChIPseeker featurerequest tss • 1.4k views
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Guangchuang Yu ★ 1.2k
@guangchuang-yu-5419
Last seen 13 days ago
China/Guangzhou/Southern Medical Univer…

tssRegion is not hard coded, see https://github.com/GuangchuangYu/ChIPseeker/blob/master/R/getGenomicAnnotation.R#L29

 

 

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