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mhammell-laboratory / TEpeaks

Package for including repetitive regions in peak calling from ChIP-seq datasets
GNU General Public License v3.0
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Species parameter question #6

Closed sixingchen718 closed 1 year ago

sixingchen718 commented 1 year ago

Hello The arguments - --species=STRING just mm9, does that means when I mapping I must use mm9, is that OK I mapping use mm10 to get the BAM file then I use TEpeaks use -s mm?

olivertam commented 1 year ago

Hi,

Yes, you can use -s mm for mm10. The parameter helps define the effective genome size, which should not be that different between mm9 and mm10.

Thanks.

sixingchen718 commented 1 year ago

@olivertam Thank you for your quick response. that's very helpful.

Best.