Question: Taxonomic classification of MAGs
0
gravatar for c.e.chong
9 weeks ago by
c.e.chong20
c.e.chong20 wrote:

Hi all,

I am looking for some advice regarding taxonomic classification of MAGs from skin Metagenomics samples.

I have binned my contigs using CONCOCT via Anvio which gives me completeness, redundancy and taxon information for each bin. I then dereplicated the genome bins and now have representative genomes from different skin states. The genomes include both fungal and bacterial genomes. I have taxon information for the dereplicated genomes as I know what bin they came from and the taxon of that bin, but is there another way to get strain resolution for my MAGs? I need any databases etc to contain fungal info as well as prokaryotic and achaean info.

Thanks in advance!

ADD COMMENTlink modified 9 weeks ago by Mensur Dlakic6.9k • written 9 weeks ago by c.e.chong20
1
gravatar for Mensur Dlakic
9 weeks ago by
Mensur Dlakic6.9k
USA
Mensur Dlakic6.9k wrote:

For prokaryotes, this database should be useful:

https://gtdb.ecogenomic.org/

You can make your own classification using their toolkit:

https://github.com/Ecogenomics/GtdbTk

ADD COMMENTlink written 9 weeks ago by Mensur Dlakic6.9k
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