calculateIntensity {DIAlignR} | R Documentation |
Retention time from reference run is mapped to experiment run using AlignObj.
calculateIntensity( XICs, left, right, integrationType, baselineType, fitEMG = FALSE, baseSubtraction = TRUE, transitionIntensity = FALSE )
XICs |
(list) list of extracted ion chromatograms of a precursor. |
left |
(numeric) left boundary of the peak. |
right |
(numeric) right boundary of the peak. |
integrationType |
(string) method to ompute the area of a peak contained in XICs. Must be from "intensity_sum", "trapezoid", "simpson". |
baselineType |
(string) method to estimate the background of a peak contained in XICs. Must be from "base_to_base", "vertical_division_min", "vertical_division_max". |
fitEMG |
(logical) enable/disable exponentially modified gaussian peak model fitting. |
baseSubtraction |
(logical) TRUE: remove background from peak signal using estimated noise levels. |
transitionIntensity |
(logical) TRUE: return intensity of each transition, FALSE: return sum of all transitions. |
(numeric)
Shubham Gupta, shubh.gupta@mail.utoronto.ca
ORCID: 0000-0003-3500-8152
License: (c) Author (2020) + GPL-3 Date: 2020-04-13
getMultipeptide, setAlignmentRank
data(XIC_QFNNTDIVLLEDFQK_3_DIAlignR, package="DIAlignR") XICs <- XIC_QFNNTDIVLLEDFQK_3_DIAlignR[["hroest_K120809_Strep0%PlasmaBiolRepl2_R04_SW_filt"]][["4618"]] ## Not run: calculateIntensity(XICs, 5220, 5261, integrationType = "intensity_sum", baselineType = "base_to_base", fitEMG = FALSE) ## End(Not run)