Genomic Scores Configuration¶
This configuration file hosts the list of all available genomic scores and the properties of their histograms.
[genomicScores] scores = mpc,cadd_gs_raw [genomicScores.mpc] id = mpc file = %(wd)s/genomicScores/mpc desc = MPC - Missense badness, PolyPhen-2, and Constraint bins = 100 yscale = log xscale = linear range = 0,1 [genomicScores.cadd_gs_raw] id = cadd_gs_raw file = %(wd)s/genomicScores/cadd_raw_gs desc = CADD GS raw bins = 101 yscale = log xscale = linear help_file = %(wd)s/genomicScores/cadd_raw_gs.md [genomicScores.cadd_gs_phred] id = cadd_gs_phred file = %(wd)s/genomicScores/cadd_phred_gs desc = CADD GS phred bins = 101 yscale = log xscale = linear help_file = %(wd)s/genomicScores/cadd_phred_gs.md
This is a optional section containing list of selected genomic score.
scores = <genomic score id 1>,<genomic score id 2>,<...>
A comma-separated list of selected genomic scores. If this property is missing then all defined scores in this file are selected.
id = <genomic score identifier>
Identifier of the genomic score. Default value is <score id> from the score section.
file = <path to genomic score histogram file>
The absolute path to the score’s histogram file.
desc = <description>
A brief description of the genomic score.
bins = <amount of bins>
The amount of bins in the score’s histogram. The value must be an integer.
yscale = <linear / log>
The scale for the Y axis of the score’s histogram.
xscale = <linear / log>
The scale for the X axis of the score’s histogram.
range = <<min value>,<max value>>
The range domain of the score - its lowest and largest possible values separated by a comma.
help_file = <path to help file>
The absolute path to the score’s help file in markdown format.