I'd love to test SPLASH vs Sourmash on UniProt protein sequences, but I saw that in splash.py, there's no foreign function interface (FFI) used in Python, it's all sys calls. Is there a way I can call splash.consume_sequence(seq) or something? I'd like to run on a stream of strings created from REST API calls to UniProt, so the fasta parsing wouldn't work as well for me.
Thank you so much!
Warmest,
Olga
Hello, Hope you are doing well. I have used degenerate protein alphabets to another k-mer based program, Sourmash, specifically the Dayhoff table and Hydrophobic-Polar table.
I'd love to test SPLASH vs Sourmash on UniProt protein sequences, but I saw that in
splash.py, there's no foreign function interface (FFI) used in Python, it's all sys calls. Is there a way I can callsplash.consume_sequence(seq)or something? I'd like to run on a stream of strings created from REST API calls to UniProt, so thefastaparsing wouldn't work as well for me. Thank you so much! Warmest, Olga