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Q: What context should be specified for the 'gsize' option with killifish mapping data?

Open LoganLHJ opened this issue 1 year ago • 1 comments

Hello,

I have a question that arose while using your module, and I'd like to briefly summarize and share it.

(Current Situation) I intend to perform peak calling using the MACS3 module with mapping data from African turquoise killifish.

(Question) I would like to ask you about the context I should provide for the "-gsize" option in the 'macs3 callpeak' command, considering the mapping data is from killifish.

  • The genome size of killifish is 1.53GB.

Thank you.

Logan

LoganLHJ avatar Dec 14 '23 15:12 LoganLHJ

As far as I can guess, it is correct to write '1.53e9' for the '-g' option with killifish ChIP-seq data. This is because the genome size of killifish is 1.53GB. Am I right?

LoganLHJ avatar Dec 15 '23 09:12 LoganLHJ