TerminalChar: Determine the Number of Terminal Characters
In DECIPHER: Tools for curating, analyzing, and manipulating biological sequences
Description
Usage
Arguments
Value
Author(s)
See Also
Examples
Description
Counts the number of terminal characters for every sequence in an XStringSet. Terminal characters are defined as a specific character repeated at the beginning and end of a sequence.
Usage
1
2
TerminalChar(myXStringSet,
char = "")
Arguments
myXStringSet
An XStringSet object of sequences.
char
A single character giving the terminal character to count, or an empty character ("") indicating to count both gap ("-") and unknown (".") characters.
Value
A matrix containing the results for each sequence in its respective row. The first column contains the number of leading char, the second contains the number of trailing char, and the third contains the total number of characters in-between.
Author(s)
Erik Wright eswright@pitt.edu
See Also
Examples
1
2
3
db <- system.file("extdata", "Bacteria_175seqs.sqlite", package="DECIPHER")
dna <- SearchDB(db)
t <- TerminalChar(dna)
DECIPHER documentation built on Nov. 8, 2020, 8:30 p.m.
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Description Usage Arguments Value Author(s) See Also Examples
Description
Counts the number of terminal characters for every sequence in an XStringSet. Terminal characters are defined as a specific character repeated at the beginning and end of a sequence.
Usage
1 2 | TerminalChar(myXStringSet,
char = "")
|
Arguments
myXStringSet |
An |
char |
A single character giving the terminal character to count, or an empty character ("") indicating to count both gap ("-") and unknown (".") characters. |
Value
A matrix containing the results for each sequence in its respective row. The first column contains the number of leading char, the second contains the number of trailing char, and the third contains the total number of characters in-between.
Author(s)
Erik Wright eswright@pitt.edu
See Also
Examples
1 2 3 | db <- system.file("extdata", "Bacteria_175seqs.sqlite", package="DECIPHER")
dna <- SearchDB(db)
t <- TerminalChar(dna)
|
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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