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Build Sankey node/link data from a CAMERA annotation result

Source: R/camera_plots.R
camera_sankey_data.Rd

Extracts the peak list from a CAMERA xsAnnotate result and builds the node/link tables needed to draw a four-column Sankey diagram showing how annotated peaks flow through isotope type, multiplicity, and adduct rule.

Usage

camera_sankey_data(cam_result)

Arguments

cam_result

An xsAnnotate object returned by CAMERA::findAdducts(). The rules used during annotation are read from cam_result@ruleset.

Value

A list with two data frames:

nodes

Columns label, x, y.

links

Columns source, target, value (0-indexed node indices, as required by plotly).

Details

The four columns are:

  1. All annotations — every annotated peak.

  2. Isotope type — no isotope annotation, [M], [M+1], [M+2], ... Satellite peaks ([M+1] etc.\ without an adduct match) terminate here.

  3. Multiplicity — [1M], [2M], ...

  4. Adduct rule — the matched rule name, ordered by frequency.

See also

camera_sankey

Author

Jan Stanstrup, stanstrup@gmail.com