compute_genotypes: Compute AA genotype at specified postions in alignment
In emvolz-phylodynamics/variantAnalysis: sarscov2 variant analysis
Description
Usage
Arguments
Value
Description
Compute AA genotype at specified postions in alignment
Usage
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compute_genotypes(
algn_fn = "alignments/cog_2020-11-11_alignment.fasta",
positions = list(S614 = 23402:23404, S222 = 22226:22228, N220 = 28931:28933, ORF10 =
29645:29647, Y453F = 22919:22921),
ofn = NULL
)
Arguments
positions
Named list of nt coordinates for given genotypes; each set of coordinates should span a codon
ofn
optional path to csv for output
Value
data frame with genotypes
emvolz-phylodynamics/variantAnalysis documentation built on Nov. 13, 2021, 7:16 p.m.
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Description Usage Arguments Value
Description
Compute AA genotype at specified postions in alignment
Usage
1 2 3 4 5 6 | compute_genotypes(
algn_fn = "alignments/cog_2020-11-11_alignment.fasta",
positions = list(S614 = 23402:23404, S222 = 22226:22228, N220 = 28931:28933, ORF10 =
29645:29647, Y453F = 22919:22921),
ofn = NULL
)
|
Arguments
positions |
Named list of nt coordinates for given genotypes; each set of coordinates should span a codon |
ofn |
optional path to csv for output |
Value
data frame with genotypes
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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