View source: R/silac_psm_seq_int.R
silac_psm_seq_int | R Documentation |
Proteome Discoverer does not correctly propagate from PSM to peptide level output which intensities are from "matched" peptides, e.g MS2 fragmentation. This information is useful to assess the accuracy of quantification in peptides identified by mass shift relative to a matched peptide in SILAC experiments
silac_psm_seq_int(
obj,
sequence_col = "Sequence",
mod_col = "Modifications",
include_interference = FALSE,
interference_col = "Isolation.Interference.in.Percent",
group_cols = NULL,
psm_modfication_regexes = c(get_psm_silac_mod_regex("R_13C6_15N4"),
get_psm_silac_mod_regex("K_13C6_15N2"))
)
obj |
|
sequence_col |
|
mod_col |
|
include_interference |
|
interference_col |
|
group_cols |
|
psm_modfication_regexes |
|
data.frame
indicating which SILAC peptides were MS2 matched,
how many PSMs per isotope, and
(optionally) the maximum interference across all PSMs for the peptide
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