Description Usage Arguments Value Examples
Calculate bootstrap CI for atom fraction excess using q-SIP method
1 2 | qSIP_bootstrap(atomX, isotope = "13C", n_sample = c(3, 3), n_boot = 10,
parallel = FALSE, a = 0.1)
|
atomX |
A list object created by |
isotope |
The isotope for which the DNA is labeled with ('13C' or '18O') |
n_sample |
A vector of length 2. The sample size for data resampling (with replacement) for 1) control samples and 2) treatment samples. |
n_boot |
Number of bootstrap replicates. |
parallel |
Parallel processing. See |
a |
A numeric value. The alpha for calculating confidence intervals. |
A data.frame of atom fraction excess values (A) and atom fraction excess confidence intervals.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 | # tranforming values
physeq_rep3_t = OTU_qPCR_trans(physeq_rep3, physeq_rep3_qPCR)
## Not run:
# BD shift (Z) & atom excess (A)
atomX = qSIP_atom_excess(physeq_rep3_t,
control_expr='Treatment=="12C-Con"',
treatment_rep='Replicate')
# bootstrapping in parallel
doParallel::registerDoParallel(2)
df_atomX_boot = qSIP_bootstrap(atomX, parallel=TRUE)
head(df_atomX_boot)
## End(Not run)
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