Metaphlan no taxa

Microbial community profiling MetaPhlAn
1

Metaphlan 4.1.1

I am using metaphlan to analyse metatranscriptomics data sample sizing 240mb pair ended , Has been cleaned and trimmed.

I install metaphlan from conda.
And I run the pair ended coma seperated command to get the taxa outcome, it runs fully smoothly, downloads the 201503 chocophlan but in the end no taxa detected.
When I run the sample.sample on diamond megan it will return a descent taxa tree. Could any one please explain the reason for that, is there an error that I am not aware of?

Thanks for your help in adavance

BW

2

Hi @Sami_Rahmeh

Can I ask the sequencing depth of your samples?
Also, which are the taxa detected by megan?

Thanks!

3

Hi Claudia,

I am not sure of the squencing depth, I am only doing the downstream analysis. But on megan I had 1 million assigned reads and the taxa varying from e.coli to staph epidermids and so on