Phylogenetics and Molecular Evolution: parameters and notes

See the tutorial for usage and examples.

Each function includes its purpose, API, inputs, outputs, example code and result description. Prepare any required credentials, local files and optional dependencies; remote results vary with database releases and query time.

Calculate dN/dS between two coding sequences

dnakit.databases.sequence_dn_ds(*, seq1=None, seq2=None, fasta1_path=None, fasta2_path=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
seq1	string | null	None	First coding sequence (in-frame, codon-aligned to seq2). DNA/RNA letters.
seq2	string | null	None	Second coding sequence (same length/frame as seq1).
fasta1_path	string | null	None	Alternative to seq1: path to a single-record FASTA
fasta2_path	string | null	None	Alternative to seq2: path to a single-record FASTA
verbose	bool	True	Progress flag.