Plot read density across a normalized gene model for its each exon/intron length

Question

[kashiff007]

I know there are several tool which can plot ChIP-seq score based on annotation file (GTF/GFF3/BED), but Is there any standard tools in R/python which can plot and normalize to gene model for its each exon/intron length?

I am looking for the following output:

Here score from each exon/intron are normalized to its length.

[Nitin Narwade]

BTW, where and how did you get this representation?

[kashiff007]

https://advances.sciencemag.org/content/advances/4/8/eaat2142.full.pdf

Answer 1

[yusuf]

1 - tool - http://www.iam.u-tokyo.ac.jp/nakatolab/softwares/drompa/index.html 2 - by SGA files https://ccg.epfl.ch//chipseq/doc/chipseq_tech.php 3 - paper - Wessels HH, Hirsekorn A, Ohler U, Mukherjee N. (2015) Identifying RBP Targets with RIP-seq. Methods Mol Biol 1358:141-52

[kashiff007]

Thanks but unfortunately none of the above work for gene model normalization.

Answer 2

[benformatics]

You could try the Guitar package.