What method do you recommend to extract 16S sequences from whole metagenome data?

Other Bioinformatics Tools
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Hi
I have two whole metagenome data, also ORF.fasta file i want to separate the 16S marker gene sequence and to analysis in qiime, is their and code available.
Thank you for your valuable time

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Hi @kulandai1,
I have reclassified this post as "other bioinformatics tools" since this is not really a QIIME 2 question, but about other methods unrelated to QIIME 2 (even though it sounds like eventually you want to input these data into QIIME 2).

You could try SortMeRNA, it's one tool I can think of designed for this very purpose: GitHub - sortmerna/sortmerna: SortMeRNA: next-generation sequence filtering and alignment tool

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