MACS2 parameters slocal and llocal - how are they related to open chromatin?
Hello everyone!
I found this text from MACS2 document
By default, MACS considers 1000bp for small local region(--slocal), and 10000bps for large local region(--llocal) which captures the bias from a long-range effect like an open chromatin domain.
Could anyone please help provide some more explanation?
I guess that this means that if an open chromatin domain was encountered, it would be better for MACS2 to compute a local lambda by scanning a larger local region, rather than a small one. If not an open chromatin, scanning a small local region should be good enough.
Am I right?
Thanks!
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