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dahak-metagenomics / dahak

benchmarking and containerization of tools for analysis of complex non-clinical metagenomes.
https://dahak-metagenomics.github.io/dahak
BSD 3-Clause "New" or "Revised" License
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How can specific sequences from metagenomes be extracted for further analysis? #86

Open kternus opened 6 years ago

kternus commented 6 years ago

Could we add instructions in dahak for how users could extract specific sequences from metagenomes for further analysis?

@ctb recommended identifying the reference sequence of interest after using sourmash on a metagenome, selecting the reference sequence, and then mapping reads from the metagenome to the selected reference sequence.

brooksph commented 6 years ago

We're working on some scripts for this analysis and should make sure to include this as a future direction in the base year report.