Module xi_covutils.matrices

Background and joint amino acid substitution frequencies used to calculate BLOSUMs matrix.

Frequencies taken from the NCBI C++ toolkit source code. https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/algo/blast/composition_adjustment/matrix_frequency_data.c

Expand source code
"""
Background and joint amino acid substitution frequencies used to calculate
BLOSUMs matrix.

Frequencies taken from the NCBI C++ toolkit source code.
https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/algo/blast/composition_adjustment/matrix_frequency_data.c

"""

Sub-modules

xi_covutils.matrices.blosum_45

Background and joint amino acid substitution frequencies used to calculate BLOSUM45 matrix …

xi_covutils.matrices.blosum_50

Background and joint amino acid substitution frequencies used to calculate BLOSUM50 matrix …

xi_covutils.matrices.blosum_62

Background and joint amino acid substitution frequencies used to calculate BLOSUM62 matrix …

xi_covutils.matrices.blosum_80

Background and joint amino acid substitution frequencies used to calculate BLOSUM80 matrix …

xi_covutils.matrices.blosum_90

Background and joint amino acid substitution frequencies used to calculate BLOSUM90 matrix …

xi_covutils.matrices.common

Common Constants for substitution matrices