Genomic Scores Configuration

This configuration file hosts the list of all available genomic scores and the properties of their histograms.

Example Configuration

[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

[genomicScores]

This is a optional section containing list of selected genomic score.

scores

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.

[genomicScores.<score id>]

id

id = <genomic score identifier>

Identifier of the genomic score. Default value is <score id> from the score section.

file

file = <path to genomic score histogram file>

The absolute path to the score’s histogram file.

desc

desc = <description>

A brief description of the genomic score.

bins

bins = <amount of bins>

The amount of bins in the score’s histogram. The value must be an integer.

yscale

yscale = <linear / log>

The scale for the Y axis of the score’s histogram.

xscale

xscale = <linear / log>

The scale for the X axis of the score’s histogram.

range

range = <<min value>,<max value>>

The range domain of the score - its lowest and largest possible values separated by a comma.

help_file

help_file = <path to help file>

The absolute path to the score’s help file in markdown format.