How the performance would be for metatranscriptomes?

snayfach / MicrobeCensus

MicrobeCensus estimates the average genome size of microbial communities from metagenomic data

http://genomebiology.com/2015/16/1/51

GNU General Public License v3.0

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How the performance would be for metatranscriptomes? #24

Closed SilentGene closed 5 years ago

SilentGene commented 5 years ago

Hi Stephen,

This is an awesome program that helped me a lot when to normalize the gene abundance across different samples. I just wonder can this software be used for metatranscriptomic data?

Cheers, Heyu

snayfach commented 5 years ago

If you are mapping reads to a gene family database (e.g. KEGG), you could divide by the average abundance of the 30 universal genes (listed in manuscript table), which should be constitutively expressed.

SilentGene commented 5 years ago

Thanks for your suggestion, Stephen! I'll try that.