Reconstruction of gene using specific reads from shotgun metagenome
Hi. I'm wanting to reconstruct gene from shotgun metagenome reads, but using only a specific read. Anyone know a good analysis tool for it?
Best Y.A.T.
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colindaven
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Y.A.T. •
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I don't think a tool exists for this. People would normally reconstruct the metagenome, providing contigs from various microorganisms in the sample. Then they annotate these contigs and/or search for specific genes in them.
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Just use a text editor/ grep / blast after assembly. But I suggest you just read up on some literature first, eg current papers and what they use, a metagenomics review etc
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