That’s a greengenes accession number. You could probably use get.seqs to pull out the actual sequence and see if there’s other information in the sequence header.
Thank you for your reply.
I may not have expressed my problem clearly.
When using “classify.seqs” command to classify my own sequence, the file usually returned is “**** .summary” and “.taxonomy”
In “.taxonomy”, the result is:
xg1.3.186974 (my seqs name) k__Bacteria(100); p__Gemmatimonadetes(100); c__Gemmatimonadetes(100); o__Ellin5290(85); f__(85); g__(85);
I want the result returned in the “****.taxonomy” file to be
the accesson ID replaces the specific taxonomy information.
such as :
xg1.3.186974 (my seqs name) accesson id in greengenes
Can this need be realized directly? Can it be realized by other indirect means?
That’s not how the Bayesian classifier works. The classifier gives you a confidence score that a sequence has a specific classification. The problem is that there are often many things that are just as good a match and it would be biased to claim one is a better match over another. That is certainly possible using one of the other methods in classify.seqs, but I do not recommend them.