getmask: getmask
In kullrich/MSA2dist: MSA2dist calculates pairwise distances between all sequences of a DNAStringSet or a AAStringSet using a custom score matrix and conducts codon based analysis
getmask R Documentation
getmask
Description
This function shows the mask slot from a
DNAStringSet or an AAStringSet
metadata information.
Usage
getmask(seq)
Arguments
seq
DNAStringSet or AAStringSet [mandatory]
Value
IRanges information from metadata
Author(s)
Kristian K Ullrich
See Also
addpop2string
Examples
## load example sequence data
data(iupac, package="MSA2dist")
iupac.aa <- iupac |> cds2aa(shorten = TRUE)
## create mask
mask1 <- IRanges::IRanges(start=c(1,41), end=c(20,50))
## add mask
iupac.aa <- iupac.aa |> addmask2string(mask=mask1)
#(iupac.aa |> slot("metadata"))$mask
iupac.aa |> getmask()
kullrich/MSA2dist documentation built on April 26, 2024, 4:43 p.m.
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| getmask | R Documentation |
getmask
Description
This function shows the mask slot from a
DNAStringSet or an AAStringSet
metadata information.
Usage
getmask(seq)
Arguments
seq |
|
Value
IRanges information from metadata
Author(s)
Kristian K Ullrich
See Also
addpop2string
Examples
## load example sequence data
data(iupac, package="MSA2dist")
iupac.aa <- iupac |> cds2aa(shorten = TRUE)
## create mask
mask1 <- IRanges::IRanges(start=c(1,41), end=c(20,50))
## add mask
iupac.aa <- iupac.aa |> addmask2string(mask=mask1)
#(iupac.aa |> slot("metadata"))$mask
iupac.aa |> getmask()
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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