Question: [ChIPseeker; feature request] More flexibility in specifying the TSS region
0
gravatar for balwierz
3.8 years ago by
balwierz40
United Kingdom
balwierz40 wrote:

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 • 650 views
ADD COMMENTlink modified 3.8 years ago by Guangchuang Yu1.1k • written 3.8 years ago by balwierz40
Answer: [ChIPseeker; feature request] More flexibility in specifying the TSS region
0
gravatar for Guangchuang Yu
3.8 years ago by
Guangchuang Yu1.1k
China/Guangzhou/Southern Medical University
Guangchuang Yu1.1k wrote:

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

 

 

ADD COMMENTlink written 3.8 years ago by Guangchuang Yu1.1k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 282 users visited in the last hour