Dear MEGAN Community,
I wanted to highlight a new study from our group, where we propose the use of the AnnoTree protein database, rather than NCBI-nr for the DIAMOND+MEGAN pipeline to determine the prokaryotic content metagenomic samples.
For further reading use the link below:
https://journals.asm.org/doi/full/10.1128/msystems.01408-21
We demonstrated using AnnoTree, there was a 2-fold speedup, increased assignment rates, in particular assigning twice as many reads to KEGG, against the prokaryotic part of NCBI-nr.
Database FastA file and mapping database both can be downloaded from link below:
https://software-ab.informatik.uni-tuebingen.de/download/megan-annotree/welcome.html
Regards,
Anupam