Description Usage Arguments Value See Also Examples
sample_community
simulates a sequencing-based sampling experiment on a
microbial community, with independent sequencing efforts for rDNA genes and
rRNA transcripts. community. This allows for the effects of partial
sequencing to be evaluated.
1 | sample_community(community, nDNA = 20000, nRNA = 20000)
|
community |
A tibble containing a microbial community. This will usually be the output of |
nDNA |
Number of rDNA gene sequences to simulate (i.e. rDNA read count) |
nRNA |
Number of rRNA transcript sequences to simulate (i.e. rRNA read count) |
A tibble containing the measured rDNA and rRNA abundances drawn from the
community. All OTUs in the input community, including those not detected,
will be included. The phantom
column indicates 'phantom OTUs' that yielded
rRNA transcripts but not rDNA gene sequences.
generate_community
1 2 | community <- generate_community(1000)
sample_community(community, nDNA = 500, nRNA = 500)
|
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