BiobaseBlast

This library contains BLAST-related functionality: Parser for tabular NCBI BLAST+ output Parser for JSON2 NCBI BLAST+ output Parsers for BLOSUM and PAM matrices. Specialized substitution functions for (in)complete amino acid / nucleotide triplet substitution. Incomplete nucleotide patterns map one or two nucleotides to an amino acid (need for indel editing in the mitochondria of certain species like p.polycephalum). The matrices are currently not provided but can be found here: ftp://ftp.ncbi.nih.gov/blast/matrices/