randseq
Generate random sequence from finite alphabet
Description
creates a random sequence with a length specified by
Seq
= randseq(SeqLength
)SeqLength
.
specifies options using one or more name-value arguments in addition to the input arguments
in previous syntaxes. Each name-value argument is case insensitive.Seq
= randseq(___,Name=Value
)
Examples
Generate Random DNA Sequence with Length of 20
This example shows how to generate a random DNA sequence with SeqLength
of 20.
randseq(20)
ans = 'TTATGACGTTATTCTACTTT'
Generate Random RNA Sequence with Length of 20
This example shows how to generate a random RNA sequence with SeqLength
of 20.
randseq(20,'Alphabet','rna')
ans = 'UUAUGACGUUAUUCUACUUU'
Generate Random Protein Sequence with Length of 20
This example shows how to generate a random protein sequence with SeqLength
of 20.
randseq(20,'Alphabet','amino')
ans = 'TYNYMRQLVVDVVITNHYSV'
Input Arguments
SeqLength
— Number of nucleotides or amino acids
integer
Number of nucleotides or amino acids in the random sequence, specified as an Integer.
Example: 20
Data Types: single
| double
Name-Value Arguments
Specify optional pairs of arguments as
Name1=Value1,...,NameN=ValueN
, where Name
is
the argument name and Value
is the corresponding value.
Name-value arguments must appear after other arguments, but the order of the
pairs does not matter.
Example: Alphabet='rna'
Alphabet
— Sequence alphabet
'dna'
(default) | 'rna'
| 'amino'
| 'AA'
Sequence alphabet, specified as a character vector or string.
Example: Alphabet='rna'
Data Types: char
| string
Weights
— Weighted random sequence
vector
Weighted random sequence, specified as a vector. randseq
creates a weighted random sequence where the ith letter of the
sequence alphabet is selected with weight W(i)
. The weight vector
is usually a probability vector or a frequency count vector.
Note
The ith element of the nucleotide alphabet is given by
int2nt(i)
.The ith element of the amino acid alphabet is given by
int2aa(i)
.
Example: Weights='1*20'
Data Types: double
| uint8
FromStructure
— Weighted random sequence using output structures
struct
Weighted random sequence using output structures from the basecount
, dimercount
, codoncount
, or aacount
functions.
Example: FromStructure=count
, where count
is the output structure from the aacount
function.
Case
— Letter case in sequence
'upper'
(default) | 'upper'
Letter case in sequence, specified as 'upper'
or
'upper'
. randseq
uses this argument if
DataType
is 'char'
.
Example: Case='lower'
Data Types: char
| string
DataType
— Data type for sequence array
'char'
(default) | 'uint8'
| 'double'
Data type for sequence array, specified as a char
,
uint8
, or double
.
Example: DataType='uint8'
Data Types: char
| double
| uint8
Output Arguments
Seq
— Random sequence
character vector (default) | uint8 | double
Random sequence, returned according to the value of
DataType
.
Version History
Introduced before R2006a
See Also
hmmgenerate
| randsample
| rand
| randperm
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