Line

Example Data

Quality	Count
18	1.0
19	14.0
20	46.0
21	111.0
22	141.0

Usage to Add

Given quality data across read positions, we can add this plot using:

$ fqc add --x-value Barcode --y-value Count \
      plot_data/2016/160912_M03018/config.json \
      "Barcode Counts" \
      bar \
      example/data/tables/160912_top50barcodes.csv

Plot Options

Option	Value
filename	supports either a single file path or list of lists with [plot tab name, file path] pairs (see Plot Tabs)
tab_name	left main menu entry
status	left main menu icon – supports ‘pass’, ‘fail’, ‘warn’, or alternatively, omitted (see Tab Status)
chart_properties	See table below

Chart Properties

Option	Value
type	the required entry is ‘bar’
subtitle	an optional subtitle for the plot
x_label	x-axis label
x_value	the header label defined in filename corresponding to x-values
y_label	y-axis label
y_value	the header label defined in filename corresponding to y-values

Example JSON entry:

{
    "filename": "simple_line.csv",
    "tab_name": "Quality by Position",
    "chart_properties": {
        "type": "line",
        "x_value": "Quality",
        "x_label": "Quality",
        "y_value": ["Count"],
        "y_label": "Count"
    }
}

Multi-line Plots

When multiple y-values are being plotted:

Base	G	A	T	C
1	45.96	51.62	1.38	1.04
2	0.8999999999999999	7.26	1.5	90.34
3	8.14	79.12	11.72	1.02
4	1.1199999999999999	5.1	4.5	89.28
5	1.82	1.0999999999999999	1.32	95.76

These data are added by specifying -y multiple times:

$ fqc add -x Base -X Position \
      -y G -y A -y C -y T \
      -Y Percent \
      plot_data/2016/160912_M03018/config.json \
      "Content by Position" \
      line \
      data/tables/multiple_line.csv

Example JSON entry:

{
    "filename": "multiple_line.csv",
    "tab_name": "Content by Position",
    "chart_properties": {
        "type": "line",
        "x_label": "Position",
        "x_value": "Base",
        "y_label": "Percent",
        "y_value": [
            "G",
            "A",
            "C",
            "T"
        ]
    }
}