# An mzIdentML parser for R

## Documentation for package ‘mzID’ version 1.12.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

mzID-package | A parser for the mzIdentML file format
as.list.mzIDCollection | A class to handle a set of mzID objects
c-method | A class to contain data from mzIdentML-files
c-method | A class to handle a set of mzID objects
database-method | A class to contain data from mzIdentML-files
database-method | A class to handle a set of mzID objects
database-method | A class to store database information from an mzIdentML file
evidence | Getter functions for identification data
evidence-method | A class to contain data from mzIdentML-files
evidence-method | A class to handle a set of mzID objects
evidence-method | A class to store peptide evidence information from an mzIdentML file
files | Getter functions for identification data
files-method | A class to contain data from mzIdentML-files
files-method | A class to handle a set of mzID objects
files-method | A Class to store analysis information from the mzIdentML file
flatten | Flatten an mzID related class into a table
flatten-method | Flatten an mzID related class into a table
id | Getter functions for identification data
id-method | A class to contain data from mzIdentML-files
id-method | A class to handle a set of mzID objects
id-method | A class to store psm information from an mzIdentML file
idScanMap | Getter functions for identification data
idScanMap-method | A class to contain data from mzIdentML-files
idScanMap-method | A class to handle a set of mzID objects
idScanMap-method | A class to store psm information from an mzIdentML file
length-method | A class to contain data from mzIdentML-files
length-method | A class to handle a set of mzID objects
length-method | A class to store database information from an mzIdentML file
length-method | A class to store peptide evidence information from an mzIdentML file
length-method | A Class to store analysis information from the mzIdentML file
length-method | A class to store peptide information from an mzIdentML file
length-method | A class to store psm information from an mzIdentML file
modifications-method | A class to contain data from mzIdentML-files
modifications-method | A class to handle a set of mzID objects
modifications-method | A class to store peptide information from an mzIdentML file
mzID | Parse an mzIdentML file
mzID-class | A class to contain data from mzIdentML-files
mzID-getters | Getter functions for identification data
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
names-method | A class to handle a set of mzID objects
names<--method | A class to handle a set of mzID objects
parameters | Getter functions for identification data
parameters-method | A class to contain data from mzIdentML-files
parameters-method | A class to handle a set of mzID objects
parameters-method | A Class to store analysis information from the mzIdentML file
peptides-method | A class to contain data from mzIdentML-files
peptides-method | A class to handle a set of mzID objects
peptides-method | A class to store peptide information from an mzIdentML file
removeDecoy | Remove decoy identification
removeDecoy-method | A class to contain data from mzIdentML-files
removeDecoy-method | A class to handle a set of mzID objects
scans-method | A class to contain data from mzIdentML-files
scans-method | A class to handle a set of mzID objects
scans-method | A class to store psm information from an mzIdentML file
show-method | A class to contain data from mzIdentML-files
show-method | A class to handle a set of mzID objects
show-method | A class to store database information from an mzIdentML file
show-method | A class to store peptide evidence information from an mzIdentML file
show-method | A Class to store analysis information from the mzIdentML file
show-method | A class to store peptide information from an mzIdentML file
show-method | A class to store psm information from an mzIdentML file
software | Getter functions for identification data
software-method | A class to contain data from mzIdentML-files
software-method | A class to handle a set of mzID objects
software-method | A Class to store analysis information from the mzIdentML file
[-method | A class to handle a set of mzID objects
[[-method | A class to handle a set of mzID objects