Associating DNA methylation and nucleosome occupancy with AS events

Question

[i.jabre26]

I have extracted different splicing events from Arabidopsis RNA-Seq data using SUPPA, generated nucleosome profiles using iNPS, and did methylation calling using BISMARK. I would like to associate DNA methylation and nucleosome occupancy wth AS patterns as shown in the link below. I would highly appreciate if someone can guide me to a tool(s) or direct me to a strategy to do so https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3362759/figure/F1/

Answer 1

[biostart]

You can use for this either NucTools (https://homeveg.github.io/nuctools/) or HOMER (http://homer.ucsd.edu/homer/).