I have assembled "bins" from metagenomic samples. But is there any tool that can tell me which species do these bins/putative genomes belong to?
Sourmash or GTDB-tk for instance.
You can get the taxonomic classification of a bin, but if you are thinking you will get the same taxonomy to each and every scaffold, then that is practically not possible.
Abhijeet Singh thanks!
Another possible way is extract rRNA sequence and BLAST.
you can try:
1. https://github.com/dutilh/CAT
2. DeepMicrobes: taxonomic classification for metagenomics with deep learning
3. BERTax: taxonomic classification of DNA sequences with Deep Neural Networks
Tushar Ahmed Shishir Thank you so much!
you can use the GTDB-Tk: a toolkit to classify genomes
Read this articles
https://www.nature.com/articles/s41564-020-0733-x
Thanks a lot Raghawendra Kumar !
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