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*`--reads 100` is the threshold for including a taxon in the initial set (R100).
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*`-l /data/standard-224c` is required, and indicates where genomes for library building may be found.
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*`--bracken-length 150` specifies that Bracken weights for the given read length (150) should be generated. That can be slow, and
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also requires extra space, so we recommend omitting `--bracken-length` when Bracken is not needed.
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also requires extra space, so we recommend omitting `--bracken-length` when Bracken is not needed. When generating Bracken weights, we recommend giving Slacken at least 32 GB of RAM.
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When the command has finished, the following files will be generated:
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