seqinr: as.alignment – R documentation

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seqinr

as.alignment

Constructor for class alignment

Description

Returns an object of (S3) class alignment.

Usage

as.alignment(nb = NULL, nam = NULL, seq = NULL, com = NULL)

Arguments

`nb`	integer. The number of sequences in the alignment.
`nam`	vector of `nb` character strings. The sequence names.
`seq`	vector of `nb` character strings. The aligned sequences.
`com`	vector of `nb` character strings. The comments about sequences.

Value

An object of class alignment which is a list with the following components:

`nb`	the number of aligned sequences
`nam`	a vector of strings containing the names of the aligned sequences
`seq`	a vector of strings containing the aligned sequences
`com`	a vector of strings containing the commentaries for each sequence or `NA` if there are no comments

Author(s)

D. Charif, J.R. Lobry

References

citation("seqinr")

Examples

as.alignment(nb = 2, nam = c("one", "two"), 
  seq = c("-ACGT", "GACG-"), com = c("un", "deux"))

seqinr

Biological Sequences Retrieval and Analysis

v4.2-16

GPL (>= 2)

Authors

Delphine Charif [aut], Olivier Clerc [ctb], Carolin Frank [ctb], Jean R. Lobry [aut, cph], Anamaria Necşulea [ctb], Leonor Palmeira [ctb], Simon Penel [cre], Guy Perrière [ctb]

Initial release

2022-05-19

as.alignment

Description

Usage

Arguments

Value

Author(s)

References

See Also

Examples

seqinr

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