psct_clr: psct_clr
In aplantin/pldist: Paired and Longitudinal Ecological Dissimilarities
Description
Usage
Arguments
Value
Description
Adds a pseudocount, (re-)closes to proportions, and then applies centered log-ratio transformation
Usage
1
Arguments
otus
Matrix of OTU counts or proportions. Rows are samples, columns are OTUs.
pseudocount
Pseudocount to be added to all values in OTU matrix. If NULL, then
0.5 is added if entries are counts, or min(1e-06, 0.5*min(nonzero p)) if entries
are proportions. If all entries are nonzero, nothing is added.
Value
Matrix of CLR-transformed data (dimensions, rownames, colnames match input)
aplantin/pldist documentation built on Feb. 26, 2021, 2:19 p.m.
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Description Usage Arguments Value
Description
Adds a pseudocount, (re-)closes to proportions, and then applies centered log-ratio transformation
Usage
1 |
Arguments
otus |
Matrix of OTU counts or proportions. Rows are samples, columns are OTUs. |
pseudocount |
Pseudocount to be added to all values in OTU matrix. If NULL, then 0.5 is added if entries are counts, or min(1e-06, 0.5*min(nonzero p)) if entries are proportions. If all entries are nonzero, nothing is added. |
Value
Matrix of CLR-transformed data (dimensions, rownames, colnames match input)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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