Your browser doesn't support javascript.
loading
Speeding Up Percolator.
Halloran, John T; Zhang, Hantian; Kara, Kaan; Renggli, Cédric; The, Matthew; Zhang, Ce; Rocke, David M; Käll, Lukas; Noble, William Stafford.
Afiliación
  • Halloran JT; Department of Public Health Sciences , University of California, Davis , Davis , California 95616 , United States.
  • Zhang H; Department of Computer Science , ETH Zurich , Zurich 8092 , Switzerland.
  • Kara K; Department of Computer Science , ETH Zurich , Zurich 8092 , Switzerland.
  • Renggli C; Department of Computer Science , ETH Zurich , Zurich 8092 , Switzerland.
  • The M; Science for Life Laboratory , KTH-Royal Institute of Technology , Solna 171 65 , Sweden.
  • Zhang C; Department of Computer Science , ETH Zurich , Zurich 8092 , Switzerland.
  • Rocke DM; Department of Public Health Sciences , University of California, Davis , Davis , California 95616 , United States.
  • Käll L; Science for Life Laboratory , KTH-Royal Institute of Technology , Solna 171 65 , Sweden.
J Proteome Res ; 18(9): 3353-3359, 2019 09 06.
Article en En | MEDLINE | ID: mdl-31407580
The processing of peptide tandem mass spectrometry data involves matching observed spectra against a sequence database. The ranking and calibration of these peptide-spectrum matches can be improved substantially using a machine learning postprocessor. Here, we describe our efforts to speed up one widely used postprocessor, Percolator. The improved software is dramatically faster than the previous version of Percolator, even when using relatively few processors. We tested the new version of Percolator on a data set containing over 215 million spectra and recorded an overall reduction to 23% of the running time as compared to the unoptimized code. We also show that the memory footprint required by these speedups is modest relative to that of the original version of Percolator.
Asunto(s)
Palabras clave
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Péptidos / Programas Informáticos / Proteómica Idioma: En Revista: J Proteome Res Asunto de la revista: BIOQUIMICA Año: 2019 Tipo del documento: Article País de afiliación: Estados Unidos Pais de publicación: Estados Unidos
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Péptidos / Programas Informáticos / Proteómica Idioma: En Revista: J Proteome Res Asunto de la revista: BIOQUIMICA Año: 2019 Tipo del documento: Article País de afiliación: Estados Unidos Pais de publicación: Estados Unidos