MetaCV: a composition-based algorithm to classify metagenomic reads and function

[whfwind]

We have developed a tool MetaCV to classify the very short metagenomic reads into specific taxonomic and functional groups.
Comparing to previous methods, there are some advantages:
1, Even faster and more accuracy than before methods, even for ~500 Gb Meta-Hit data, only take 2 days to classify and characterize this metagenomic data.
2, Except obtaining taxonomic information, it also provided functional enrichment of identified microorganisms.
3, Easy to use, the tool can download from

http://metacv.sourceforge.net/

there are also some sample data for simulation.

[boetsie]

Hi whfwind,

nice piece of tool, really like the output! I was wondering if you did a comparison with other tools, are you planning for a publication? Also, could I use this tool for 16s databases (e.g. RDP?) and obtain similar plots like the one I obtained with the testdataset? I've tried to make a database myself, but then I was missing some files like the *.ko2path and *.anno2inf.

Regards,
Boetsie

[alouyakis]

We have developed a tool MetaCV to classify the very short metagenomic reads into specific taxonomic and functional groups.
Comparing to previous methods, there are some advantages:
1, Even faster and more accuracy than before methods, even for ~500 Gb Meta-Hit data, only take 2 days to classify and characterize this metagenomic data.
2, Except obtaining taxonomic information, it also provided functional enrichment of identified microorganisms.
3, Easy to use, the tool can download from

http://metacv.sourceforge.net/

there are also some sample data for simulation.

Hi whfwind,

I've been using MetaCV for a couple years now and I really like the tool. I'm trying to build my own databases using the procedure outlined on the sourceforge site, but I'm having a lot of errors stemming from repeated gi detection. It appears that MetaCV is assigning the wrong field to gi number. It is detecting MULTISPECIES from multiple .faa as gi and giving an error. Any thoughts on how I can correct this?

Dyanna


Edit: It appears the problem is based on the phase out of gi numbers. Can the program be updated to use accession/version numbers instead?