Description Usage Arguments Details Value Author(s) References Examples
This function calculates the unique number of features seen in each sample.
1 | richness_calc(omicsData, index = c("observed", "chao1", "ace", "break"))
|
omicsData |
an object of the class 'seqData' created by |
index |
a character vector stating which of the calculations to perform - "observed" for the observed richness, "chao1" the bias-corrected chao1 richness estimator, and/or "ace" for the abundance-based coverage richness estimator. Default is to perform all 3 calculations. |
Calculates richness of count data
An object of class richRes (also a data.frame) containing the richness value for every sample in the data object.
Allison Thompson
Chao, Anne. Species Richness Estimation.
1 2 3 4 5 6 7 8 9 | ## Not run:
library(mintJansson)
data(rRNA_data)
rRNA_richness <- richness_calc(omicsData = rRNA_data)
rRNA_richness
summary(rRNA_richness)
plot(rRNA_richness)
## End(Not run)
|
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