Question

How to know the mm9 genome size?

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6.5 years ago

mikysyc2016 ▴ 120

When I use MACS2 to do peakcalling, i need to know genome size(gsize), and I use mm9. How I can know that? Thanks!

ChIP-Seq • 2.6k views

ADD COMMENT • link updated 6.5 years ago by igor 13k • written 6.5 years ago by mikysyc2016 ▴ 120

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Would FetchChromSizes be helpful?

ADD REPLY • link 6.5 years ago by Sishuo Wang ▴ 230

score 1 · Answer 1 · 2018-06-11

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6.5 years ago

lakhujanivijay 5.9k

this link may help

ADD COMMENT • link 6.5 years ago by lakhujanivijay 5.9k

score 1 · Answer 2 · 2018-06-11

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6.5 years ago

igor 13k

For MACS, genome size is already precompiled for common species. No need to do extra work. You can use mm for mouse.

This is explained in more depth in the documentation.

ADD COMMENT • link 6.5 years ago by igor 13k

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macs2 -g mm is what you need.

ADD REPLY • link 6.5 years ago by ATpoint 85k