yy_dataset: Datasets for Demonstrations

Description Usage Format Details Author(s) References See Also Examples

Description

Examples of toy data to test and demonstrate cubfits.

Usage

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Format

All are in list formats.

Details

b.Init contains two sets (roc and rocnse) of initial coefficients including mutation and selection parameters for 3 amino acids 'A', 'C', and 'D' in matrix format. Both sets are in b format.

ex.train contains a training set of 100 sequences including 3 reu13.df (codon counts in reu13 data frame format divided by amino acids), 3 y (codon counts in simplified data frame format divided by amino acids), 3 n (total amino acid counts in vector format divided by amino acids), and phi.Obs (observed phi values in vector format).

ex.test contains a testing set of the other 100 sequences in the same format of ex.train.

Author(s)

Wei-Chen Chen [email protected].

References

https://github.com/snoweye/cubfits/

See Also

init.function(), cubfits(), cubpred(), and cubappr().

Examples

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## Not run: 
suppressMessages(library(cubfits, quietly = TRUE))

str(b.Init)
str(ex.test)
str(ex.train)

## End(Not run)

snoweye/cubfits documentation built on May 26, 2017, 1:28 p.m.