Designed with package integration in mind, the set sequences function allows you to change the nucleotide strings of sequences in a strollur object. For example, set_sequences may be used after alignment to overwrite the unaligned sequences with aligned sequences.
Usage
xdev_set_sequences(
data,
sequence_names,
sequences,
comments = as.character(c())
)Arguments
- data,
a strollur object
- sequence_names,
a vector of strings containing sequence names
- sequences,
a vector of strings containing sequence nucleotide strings
- comments,
a vector of strings containing sequence comments. (Optional)
Value
an updated strollur object
Examples
data <- new_dataset(dataset_name = "my_dataset")
xdev_add_sequences(data = data,
table = data.frame(sequence_name = c("seq1", "seq2",
"seq3", "seq4")))
#> Added 4 sequences.
#> my_dataset:
#>
#>
#> Number of unique seqs: 4
#> Total number of seqs: 4
#>
#>
xdev_set_sequences(data = data,
sequence_names = c("seq1", "seq2","seq3", "seq4"),
sequences = c("ATTGC", "ACTGC", "AGTGC", "TTTGC"))
#> my_dataset:
#>
#> starts ends nbases ambigs polymers numns numseqs
#> Minimum: 1 5 5 0 1 0 1.00
#> 2.5%-tile: 1 5 5 0 1 0 1.10
#> 25%-tile: 1 5 5 0 1 0 2.00
#> Median: 1 5 5 0 2 0 3.00
#> 75%-tile: 1 5 5 0 3 0 4.00
#> 97.5%-tile: 1 5 5 0 1 0 4.90
#> Maximum: 1 5 5 0 3 0 4.00
#> Mean: 1 5 5 0 1 0 0.00
#>
#> Number of unique seqs: 4
#> Total number of seqs: 4
#>
#>