compute_spike614genotype: Determine the spike 614 genotype for the given fasta...
In emvolz-phylodynamics/sarscov2Rutils: Scripts to support preparation and analysis of SARS CoV 2 analyses
Description
Usage
Arguments
Value
Description
Determine the spike 614 genotype for the given fasta alignment
NOTE: requires mafft which will be used to realign input data. Requires seqinr package
Usage
1
compute_spike614genotype(algnfn, algnfn2 = "standard_coords.fasta")
Arguments
algnfn
path to fasta with nucleotide alignment. This will be re-aligned, so no need for standard coordinates
algnfn2
path to which realigned sequences will be saved
Value
A data frame with a column giving the genotype
emvolz-phylodynamics/sarscov2Rutils documentation built on Nov. 17, 2020, 9:22 a.m.
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.
Description Usage Arguments Value
Description
Determine the spike 614 genotype for the given fasta alignment NOTE: requires mafft which will be used to realign input data. Requires seqinr package
Usage
1 | compute_spike614genotype(algnfn, algnfn2 = "standard_coords.fasta")
|
Arguments
algnfn |
path to fasta with nucleotide alignment. This will be re-aligned, so no need for standard coordinates |
algnfn2 |
path to which realigned sequences will be saved |
Value
A data frame with a column giving the genotype
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.