getChromatogramIndices {DIAlignR} | R Documentation |
This function reads the header of chromatogram files. It then fetches chromatogram indices by matching transition_id(osw) with chromatogramID(mzml).
getChromatogramIndices(fileInfo, precursors, mzPntrs)
fileInfo |
(data-frame) Output of getRunNames function. |
precursors |
(data-frame) Atleast two columns transition_group_id and transition_ids are required. |
mzPntrs |
A list of mzRpwiz. |
(list) A list of dataframes having following columns:
transition_group_id |
(string) it is either fetched from PRECURSOR.GROUP_LABEL or a combination of PEPTIDE.MODIFIED_SEQUENCE and PRECURSOR.CHARGE from osw file. |
chromatogramIndex |
(integer) Index of chromatogram in mzML file. |
Shubham Gupta, shubh.gupta@mail.utoronto.ca
ORCID: 0000-0003-3500-8152
License: (c) Author (2019) + GPL-3 Date: 2019-04-07
chromatogramIdAsInteger, mapPrecursorToChromIndices
dataPath <- system.file("extdata", package = "DIAlignR") fileInfo <- DIAlignR::getRunNames(dataPath = dataPath) precursors <- getPrecursors(fileInfo, oswMerged = TRUE) mzPntrs <- getMZMLpointers(fileInfo) prec2chromIndex <- getChromatogramIndices(fileInfo, precursors, mzPntrs) rm(mzPntrs)