Package de.isas.mztab2.model

Class MsRun

  • @Generated(value="io.swagger.codegen.languages.JavaClientCodegen",
           date="2019-08-07T11:10:11.690+02:00")
public class MsRun
extends IndexedElement
    Specification of ms_run. location: Location of the external data file e.g. raw files on which analysis has been performed. If the actual location of the MS run is unknown, a “null” MUST be used as a place holder value, since the [1-n] cardinality is referenced elsewhere. If pre-fractionation has been performed, then [1-n] ms_runs SHOULD be created per assay. instrument_ref: If different instruments are used in different runs, instrument_ref can be used to link a specific instrument to a specific run. format: Parameter specifying the data format of the external MS data file. If ms_run[1-n]-format is present, ms_run[1-n]-id_format SHOULD also be present, following the parameters specified in Table 1. id_format: Parameter specifying the id format used in the external data file. If ms_run[1-n]-id_format is present, ms_run[1-n]-format SHOULD also be present. fragmentation_method: The type(s) of fragmentation used in a given ms run. scan_polarity: The polarity mode of a given run. Usually only one value SHOULD be given here except for the case of mixed polarity runs. hash: Hash value of the corresponding external MS data file defined in ms_run[1-n]-location. If ms_run[1-n]-hash is present, ms_run[1-n]-hash_method SHOULD also be present. hash_method: A parameter specifying the hash methods used to generate the String in ms_run[1-n]-hash. Specifics of the hash method used MAY follow the definitions of the mzML format. If ms_run[1-n]-hash is present, ms_run[1-n]-hash_method SHOULD also be present.

    mzTab-M specification example(s):

    COM     location can be a local or remote URI
MTD     ms_run[1]-location      file:///C:/path/to/my/file.mzML
MTD     ms_run[1]-instrument_ref        instrument[1]
MTD     ms_run[1]-format        [MS, MS:1000584, mzML file, ]
MTD     ms_run[1]-id_format     [MS, MS:1000530, mzML unique identifier, ]
MTD     ms_run[1]-fragmentation_method[1]       [MS, MS:1000133, CID, ]
COM     for mixed polarity scan scenarios
MTD     ms_run[1]-scan_polarity[1]      [MS, MS:1000130, positive scan, ]
MTD     ms_run[1]-scan_polarity[2]      [MS, MS:1000129, negative scan, ]
MTD     ms_run[1]-hash_method   [MS, MS:1000569, SHA-1, ]
MTD     ms_run[1]-hash  de9f2c7fd25e1b3afad3e85a0bd17d9b100db4b3