Positional probabilities of amino acids in denovo peptide predictions

instadeepai / InstaNovo

De novo peptide sequencing with InstaNovo: Accurate, database-free peptide identification for large scale proteomics experiments

Apache License 2.0

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Positional probabilities of amino acids in denovo peptide predictions #35

Open ayavinash opened 7 months ago

ayavinash commented 7 months ago

Hi, thanks for releasing Instanovo. I tried denovo predictions on my own data and and received the output csv. It contains only sequence and peptide probability. Could you please let us know, how can we get the positional probability of each predicted amino acids in peptide sequence? Thanks.

irleader commented 6 months ago

I am also wondering, the log pobability is natural log or log 10 based? I would like to trasnform the log probaility back to probability.

Yang-Lab-TONGJI commented 5 days ago

it seem like natural log and i transfroms part of result as blow: log_prob,prob -0.54462,0.58006 -0.09799,0.90666 -0.00983,0.99022 -0.02937,0.97106 -0.00289,0.99711 -0.32162,0.72497