| Bioinformatics Toolbox | |
Return a BLOSUM scoring matrix
Matrix = blosum(Identity,
'PropertyName', PropertyValue...)
[Matrix, Matrixinfo] = blosum(N)
blosum(..., 'Extended', ExtendedValue)
blosum(..., 'Order', OrderValue)
Identity | Percent identity level. Enter values from 30 to 90 in increments of 5, enter 62, or enter 100. |
| Extended | Property to control the listing of extended amino acid codes. Enter either true or false. The default value is true. |
Order | Property to specify the order amino acids are listed in the matrix. Enter a character string of legal amino acid characters. The length is 20 or 24 characters. |
Matrix = blosum(Identity, 'PropertyName', PropertyValue...) returns a BLOSUM (Blocks Substitution Matrix) matrix with a specified percent identity. The default ordering of the output includes the extended characters B, Z, X, and *.
A R N D C Q E G H I L K M F P S T W Y V B Z X *
blosum(..., 'Extended', ExtendedValue) if Extended is false, this function returns the scoring matrix for the standard 20 amino acids. Ordering of the output when Extended is false is
A R N D C Q E G H I L K M F P S T W Y V
blosum(..., 'Order', OrderValue) returns a BLOSUM matrix ordered by an amino acid sequence (OrderString).
[B, MatrixInfo] = blosum(Identity) returns a structure of information about a BLOSUM matrix with the fields Name, Scale, Entropy, ExpectedScore, HighestScore, LowestScore, and Order.
Return a BLOSUM matrix with a value of 50.
B50 = blosum(50)
Return a BLOSUM matrix with the amino acids in a specific order.
B75 = blosum(75,'Order','CSTPAGNDEQHRKMILVFYW')
Bioinformatics Toolbox functions nwalign, dayhoff, pam, gonnet, swalign
| | blastread | cleave | |
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