GA-Novo

algorithm · Genetic algorithm

GA-Novo: algorithm · Genetic algorithm. Genetic-algorithm approach for de novo peptide sequencing from tandem mass spectra.

Genetic-algorithm approach for de novo peptide sequencing from tandem mass spectra.

Kind	algorithm
Deep learning	no
Acquisition	DDA
Family	Genetic algorithm

Reported comparison

The comparison table this method’s own papers print, standardised: every value on a 0-1 scale, methods down the side, the measure and then the species across. These are numbers papers report about themselves and their baselines. They are not a leaderboard, and they do not compare across tables: each was produced by a different group, on the dataset named in its corner, with each baseline either retrained, run from released weights or quoted from another paper. Where the paper says which, it follows the method’s name (hover it for the sentence); most papers do not say. Bold is the best value in a column and underline the runner-up, our ranking rather than the paper’s own marks.

Table 5

GA-Novo: De Novo Peptide Sequencing via Tandem Mass Spectrometry using Genetic Algorithm, page 11: The results of sequencing 120 MS/MS spectra by GA-Novo and PEAKS.

120 spectra of the Wessels et al. 2012 full factorial LC-MS/MS benchmark (E. coli K12, LTQ-FT); no accession	Amino acid precision	Amino acid recall	Peptide recall
GA-Novo	0.89	0.88	0.64
PEAKS · released	0.85	0.84	0.56

Papers describing it (3)

GA-Novo: De Novo Peptide Sequencing via Tandem Mass Spectrometry using Genetic Algorithm (2019, arXiv, preprint)
GA-Novo: De Novo Peptide Sequencing via Tandem Mass Spectrometry Using Genetic Algorithm (2019, Lecture Notes in Computer Science, peer-reviewed)
Evolutionary Algorithms for Improving De Novo Peptide Sequencing (2020, thesis)

Authors (4)

Samaneh Azari, Bing Xue, Mengjie Zhang, Lifeng Peng

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