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ohlab / GRiD

Growth Rate Index (GRiD) measures bacterial growth rate from reference genomes (including draft quality genomes) and metagenomic bins at ultra-low sequencing coverage (> 0.2x).
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GRiD value impacted by sequencing depth ? #11

Closed YU-DENG closed 4 years ago

YU-DENG commented 5 years ago

Hi,

I am using GRiD to evaluate growth rates of metagenome assembled genomes in multiple samples, metagenomic sequencing depth for samples varies a lot, so I am wondering whether should I subset all the metagenomic datasets to an even depth.

Thanks a lot !

aemiol commented 5 years ago

Typically, higher coverage results in more accurate predictions and factors such as genome fragmentation may affect the output. I think you should be ok with genome coverage >= 1X.

Cheers, Tunde