Manpage of scoreHistogram
Section: User Commands (1)
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scoreHistogram - plot histogram of cross-correlation scores
scoreHistogram filename iterationNum
scoreHistogram filename iterationNum numBins
scoreHistogram filename iterationNum numBins colNum
scoreHistogram filename iterationNum numBins colNum numParticles
Compute and plot a histogram of cross-correlation scores (or other
columns from motive lists) corresponding to the specified iteration
number. If called with only the name of the PEET parameter (aka prm)
file, a histogram of the cross-correlation scores generated by the
final alignment iteration will be plotted. Cross-correlation values
plotted will be those from column 1 of the motive list(s), which
have been adjusted according to any missing wedge compensation
By default, scoreHistogram includes values from all motive list rows
not flagged as duplicates (classID = -9999 in motive list column 20).
This behavior can be modifed by setting includeList, excludeList,
and / or selectClassID, which scoreHistogram honors, in the prm file.
See averageAll(1) for details on these parameters. Additionally, the
total number particles / values to include can be specified using the
optional numParticles runstring argument; particles to be included
will be chosen using the same criteria as would apply during averaging
when fewer than the total number of particles are specified.
The name of the parameter (*.prm) file.
- iterationNumber (optional)
An integer specifying the alignment iteration whose output will be
plotted. If omitted, the final alignment iteration specified by the
prm file will be assumed.
- numBins (optional, default = 100)
The number of bins desired in the histogram.
- colNum (optional, default = 1)
Which column number of the motive list(s) to use in generating the
histogram. The default, 1, is the adjusted cross-correlation score.
- numParticles (optional)
An integer number of particles to include in the historgram, ordered
according to prm file settings as if particles were being chosen for
averaging. If omitted or <= 0, all available particles will be used.
alignSubset(1), averageAll(1), PEET(1)
- SEE ALSO
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Time: 18:16:05 GMT, January 11, 2021