R: Compute the BLOSUM62 derived indices of a protein sequence

blosumIndices {Peptides} | R Documentation

## Compute the BLOSUM62 derived indices of a protein sequence

### Description

BLOSUM indices were derived of physicochemical properties that have been subjected to a VARIMAX analyses and an alignment matrix of the 20 natural AAs using the BLOSUM62 matrix.

### Usage

    blosumIndices(seq)

### Arguments

`seq` | An amino-acids sequence

### Value

The computed average of BLOSUM indices of all the amino acids in the corresponding peptide sequence.

### References

Georgiev, A. G. (2009). Interpretable numerical descriptors of amino acid space. Journal of Computational Biology, 16(5), 703-723.

### Examples

    blosumIndices(seq = "KLKLLLLLKLK")
    # [[1]]
    #   BLOSUM1    BLOSUM2    BLOSUM3    BLOSUM4    BLOSUM5
    # -0.4827273 -0.5618182 -0.8509091 -0.4172727  0.3172727

    #  BLOSUM6   BLOSUM7     BLOSUM8    BLOSUM9   BLOSUM10
    # 0.2527273  0.1463636  0.1427273 -0.2145455 -0.3218182

[Package Peptides version 2.4.4 Index]