seqMiner for Enhancer clustering?

[Madhan Selvaraj]

Dear seqMiners,

I am wondering if I can use the seqMiner to cluster enhancers from different cell type. I have chip-seq peaks for H3K4em1 (enhancers) and H3K27ac(Active) and assembled a list of 280,000 active enhancer regions from 6 cell types. Now I would like to see if  there are any specific set of clusters for each cell type.

I tried loading the 280000 regions as reference peaks and bam files of 6 H3K27ac datasets to cluster but after several hours, seqMiner is still running without any output. Any thoughts?

Best,

Madhan

[intibeto .]

Hi Madhan,

I have run some large analysis and sometimes it would run overnight or up to 15 hrs!

keep waiting!

inti

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[Madhan Selvaraj]

Thanks Inti!