clusters generated by plotHeatmap of deeptools

Question

[hiroaki.tachiwana]

Hi,

I am analyzing my ChIP-seq data using deeptools. I got clusters using plotHeatmap and would like to use these clusters for further analysis. How can I get bed files of clusters generated by plotHeatmap’s kmeans option?

Answer 1

[Rashedul Islam]

Please look at the Output Options here. You can use -

--outFileSortedRegions

[hiroaki.tachiwana]

Thank you so much!!

Hiro