Question: compute genome composition (total amount of introns/exons etc)
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gravatar for jenyka_dm
8 days ago by
jenyka_dm0
jenyka_dm0 wrote:

Hi, Following chip-seq analysis, the distribution of peaks over chromosome regions was computed using chippeakanno (assignChromosomeRegion). Now, I am trying to find out the actual composition of the genome (the total of amount of exons, introns, intergenic regions etc). Any suggestions on how I can get that info using chippeakanno (I need the same parameters that were used initially to define the regions)? Looking for the Arabidopsis thaliana genome. Thank you!!!!

genome • 62 views
ADD COMMENTlink modified 8 days ago by aditi.qamra250 • written 8 days ago by jenyka_dm0
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gravatar for aditi.qamra
8 days ago by
aditi.qamra250
Toronto
aditi.qamra250 wrote:

You can parse the TxDb object you used for this genome to annotate the peaks in the first place. See http://genomicsclass.github.io/book/pages/bioc1_annoOverview.html

ADD COMMENTlink written 8 days ago by aditi.qamra250
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