probOfChange: probOfChange
In dinaIssakova/rgenesconverged: A Package for Estimating Probability of Convergent Evolution from Genomic Data
Description
Usage
Arguments
Value
References
Examples
Description
Calculate the probability of one amino acid mutating into another over a given branch length.
Warning: Exponential runtime; test only on very small datasets.
Usage
1
probOfChange(pam, AA1, AA2, d)
Arguments
pam
The PAM matrix given in ./data.
AA1
The origin amino acid
AA2
The target amino acid
d
The branch length between the two sequences.
Value
A scaled probability of mutation.
References
https://cran.r-project.org/web/packages/foreach/index.html
citation("Biostrings")
Examples
1
probOfChange(pam, "L", "K", 3)
dinaIssakova/rgenesconverged documentation built on Jan. 7, 2020, 4:25 p.m.
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Description Usage Arguments Value References Examples
Description
Calculate the probability of one amino acid mutating into another over a given branch length. Warning: Exponential runtime; test only on very small datasets.
Usage
1 | probOfChange(pam, AA1, AA2, d)
|
Arguments
pam |
The PAM matrix given in ./data. |
AA1 |
The origin amino acid |
AA2 |
The target amino acid |
d |
The branch length between the two sequences. |
Value
A scaled probability of mutation.
References
https://cran.r-project.org/web/packages/foreach/index.html
citation("Biostrings")
Examples
1 | probOfChange(pam, "L", "K", 3)
|
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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