Results
We introduce Pipasic (peptide intensity-weighted proteome abundance similarity correction) as a tool that corrects identification and spectral counting-based quantification results using peptide similarity estimation and expression level weighting within a non-negative lasso framework. Pipasic has distinct advantages over approaches only regarding unique peptides or aggregating results to the lowest common ancestor, as demonstrated on examples of viral diagnostics and an acid mine drainage dataset. Availability and implementation: Pipasic source code is freely available from https://sourceforge.net/projects/pipasic/. Contact: RenardB@rki.de
Supplementary Information
Supplementary data are available at Bioinformatics online.