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mzID

An mzIdentML parser for R

A parser for mzIdentML files implemented using the XML package. The parser tries to be general and able to handle all types of mzIdentML files with the drawback of having less 'pretty' output than a vendor specific parser. Please contact the maintainer with any problems and supply an mzIdentML file so the problems can be fixed quickly.

Functions (20)

flatten

Flatten an mzID related class into a table

increment

Tools to handle generation of lookup names for the dictionary

keyFor

Tools to handle generation of lookup names for the dictionary

mzID

Parse an mzIdentML file

mzID-class

A class to contain data from mzIdentML-files

mzID-getters

Getter functions for identification data

mzID-package

A parser for the mzIdentML file format

mzIDCollection

Create a new mzIDCollection

mzIDCollection-class

A class to handle a set of mzID objects

mzIDdatabase

A constructor for the mzIDdatabase class

mzIDdatabase-class

A class to store database information from an mzIdentML file

mzIDevidence

A constructor for the mzIDevidence class

mzIDevidence-class

A class to store peptide evidence information from an mzIdentML file

mzIDparameters

A constructor for the mzIDparameters class

mzIDparameters-class

A Class to store analysis information from the mzIdentML file

mzIDpeptides

A constructor for the mzIDpeptides class

mzIDpeptides-class

A class to store peptide information from an mzIdentML file

mzIDpsm

A constructor for the mzIDpsm class

mzIDpsm-class

A class to store psm information from an mzIdentML file

removeDecoy

Remove decoy identification

mzID

An mzIdentML parser for R

v1.28.0

GPL (>= 2)

Authors

Laurent Gatto [ctb, cre] (<https://orcid.org/0000-0002-1520-2268>), Thomas Pedersen [aut] (<https://orcid.org/0000-0002-6977-7147>), Vladislav Petyuk [ctb]

Initial release

mzID

Functions (20)

mzID

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