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Last update on 08. Apr 2009 .
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Export Column statistics to GnuPlot

OCCURRENCE

ARB_NT/SAI/Etc/Export Column statistics to GnuPlot

 

DESCRIPTION

Select a valid column statistic

Select what kind of information should be extracted

  •                               Information         Formula
                                
  •                                ------------------------------------
    G+C ratio           (G+C) / N
    G+A ratio           (G+A) / N
    Rate                mutation_sum / frequency_sum
    TT ratio            (min.mutations + transversions) / transversions
    Most freq. base     F1 / N
    2nd freq. base      F2 / N
    3rd freq. base      F3 / N
    Least freq. base    F4 / N
    A ratio             A / N
    C ratio             C / N
    G ratio             G / N
    TU ratio            (T+U) / N
    Helix               boolean (helix or not helix)
                                
  • Legend:
  •                                ------
    A/C/G/T/U = amount of A/C/G/T/U's in each column
    N         = total amount of bases in each column
    Fx        = F1 = count of most freq. base, ..., F4 of least freq. base
                                

Select if you like smoothing of the values (before they are written to file)

Select a filter

Select a filename (specify without extension, which will be appended by ARB)

Press 'Save' to save to a file or Press 'Save & View' to save and start gnuplot

In the last case you have some more options:

  • Select gnuplot-internal smoothing function
  • Select if to overlay other statistics (which were saved before)

 

NOTES

Pressing 'Delete all overlayed files' will delete all the files, which would be overlayed, if you press 'Save & View'.

 

EXAMPLES

None

 

WARNINGS

None

 

BUGS

No bugs known