setting {msProcess} | R Documentation |
Class Representing the Setting of a Mass Spectrometer
Description
Class slots:
- dist.drift
- a numeric scalar denoting the length of drift tube in meters.
- dist.focus
- a numeric scalar denoting the distance between charged grids in millimeters.
- dist.accel
- a numeric scalar denoting the distance from sample plate to first grid in millimeters.
- volt.accel
- a numeric scalar denoting the voltage between charged grids in volts.
- volt.focus
- a numeric scalar denoting the voltage used in ion focusing phase in volts.
- time.delay
- a numeric scalar denoting the delay time before focus voltage is applied in nanoseconds.
- time.resol
- a numeric scalar denoting the time between detector records in seconds.
- vel0.mean
- a numeric scalar denoting the mean initial velocity in meters/second.
- vel0.std
- a numeric scalar denoting the standard deviation of initial velocity.
The model of a linear MALDI-TOF instrument with time-lag focusing
depends on the nine parameters. In a real instrument,
the three distance parameters
(dist.drift
, dist.focus
, and dist.accel
)
are unchanging characteristics of the design.
The user has direct control over
volt.accel
, volt.focus
, time.delay
, and time.resol
.
The parameters that determine the normal distribution of initial velocities,
i.e., vel0.mean
and vel0.std
,
are controlled indirectly by the choice of EAM and by the laser intensity.
S3 METHODS
- show
- Display a
setting
object.
Usage: show(object) or object
- object
- a
setting
object.
References
Coombes, K.R., Koomen, J.M., Baggerly, K.A., Morris, J.S., Kobayashi, R.,
``Understanding the characteristics of mass spectrometry data
through the use of simulation,"
Cancer Informatics, 2005(1):41–52, 2005.
See Also
spectrometer
.
[Package
msProcess version 1.0.5
Index]