Available De Novo Engines

Novor

class ursgal.wrappers.novor_1_1beta.novor_1_1beta(*args, **kwargs)

Novor UNode Parameter options at http://rapidnovor.com/

Reference: Bin Ma (2015) Novor: Real-Time Peptide de Novo Sequencing Software.

postflight()

Reformats the Novor output file

preflight()

Formatting the command line via self.params

Params.txt file will be created in the output folder

Returns:self.params
Return type:dict

PepNovo

class ursgal.wrappers.pepnovo_3_1.pepnovo_3_1(*args, **kwargs)

PepNovo v3.1 UNode http://proteomics.ucsd.edu/Software/PepNovo/

Reference: Ari M. Frank, Mikhail M. Savitski, Michael L. Nielsen, Roman A. Zubarev, and Pavel A. Pevzner (2007) De Novo Peptide Sequencing and Identification with Precision Mass Spectrometry, J. Proteome Res. 6:114-123.

postflight()

Reformats the PepNovo output file

preflight()

Formatting the command line via self.params

Returns:self.params
Return type:dict