CYANA Command: atoms calibrate: Difference between revisions
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== Parameters == | == Parameters == | ||
; selection='' | ; selection=''[[atom selection]]'': (default: ''none'') | ||
; peaklists=''integer range'': (default: 1..1) | ; peaklists=''integer range'': (default: 1..1) | ||
; constant=''real'': (default: -1.0) | ; constant=''real'': (default: -1.0) | ||
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== Description == | == Description == | ||
Command to set the calibration constant of the atoms matched by the given ''selection'' for the chosen ''peaklists''. By default, the selection made in the most recent 'atoms select' command is used, or all atoms if no selection has been made so far. The calibration constant can either be set explicitly to a given positive ''constant'', or it can be determined such as to achieve a median upper distance limit of approximately ''dref'' Å for the peaks assigned to selected atoms in the ''peaklists''. Only assignments to which a fraction of the total peak volume greater than the cutoff ''volcut'' is attributed are included when computing the median. This command sets the calibration constant of atoms, which may later be used to obtain upper distance limit restraints from assigned NOESY peaks by the command [[CYANA Commands: peaks calibrate|''peaks calibrate'']]. | Command to set the calibration constant of the atoms matched by the given ''selection'' for the chosen ''peaklists''. By default, the selection made in the most recent 'atoms select' command is used, or all atoms if no selection has been made so far. The calibration constant can either be set explicitly to a given positive ''constant'', or it can be determined such as to achieve a median upper distance limit of approximately ''dref'' Å for the peaks assigned to selected atoms in the ''peaklists''. Only assignments to which a fraction of the total peak volume greater than the cutoff ''volcut'' is attributed are included when computing the median. This command sets the calibration constant of atoms, which may later be used to obtain upper distance limit restraints from assigned NOESY peaks by the command [[CYANA Commands: peaks calibrate|'''peaks calibrate''']]. | ||
== See also == | == See also == | ||
Latest revision as of 10:48, 13 August 2009
Parameters
- selection=atom selection
- (default: none)
- peaklists=integer range
- (default: 1..1)
- constant=real
- (default: -1.0)
- dref=real
- (default: 3.4)
- volcut=real
- (default: 0.66)
Description
Command to set the calibration constant of the atoms matched by the given selection for the chosen peaklists. By default, the selection made in the most recent 'atoms select' command is used, or all atoms if no selection has been made so far. The calibration constant can either be set explicitly to a given positive constant, or it can be determined such as to achieve a median upper distance limit of approximately dref Å for the peaks assigned to selected atoms in the peaklists. Only assignments to which a fraction of the total peak volume greater than the cutoff volcut is attributed are included when computing the median. This command sets the calibration constant of atoms, which may later be used to obtain upper distance limit restraints from assigned NOESY peaks by the command peaks calibrate.