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To cite PEIMAN2 in publications use:

Nickchi P, Mirzaie M, Baumann M, Dibavar AS, Jafari M (2022). “Monitoring Functional Post-Translational Modifications Using a Data-Driven Proteome Informatic Pipeline Based on PEIMAN2.” biorXiv, 4(43), 1686. https://www.biorxiv.org/content/10.1101/2022.11.09.515610v1.

Corresponding BibTeX entry: 

  @Article{,
    title = {Monitoring Functional Post-Translational Modifications
      Using a Data-Driven Proteome Informatic Pipeline Based on
      PEIMAN2},
    author = {Payman Nickchi and Mehdi Mirzaie and Marc Baumann and
      Amirata Saei Dibavar and Mohieddin Jafari},
    year = {2022},
    journal = {biorXiv},
    volume = {4},
    number = {43},
    pages = {1686},
    url =
      {https://www.biorxiv.org/content/10.1101/2022.11.09.515610v1},
  }

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.