How do “same ion” outlines work in TransOmics™ Informatics?

Each run is aligned and the aligned runs are used to find a common set of compound ion outlines. By default, all of the runs are used during the compound ion detection process so, even if a compound ion is missing from one or more runs, its outline will still be found. This set of outlines is then applied to all aligned runs. This means TransOmics™ Informatics only measures a zero abundance if the ion is truly missing.