load.mcs: Load peptides from the mammalian collagen sequences...

In bioarch-sjh/bacollite: Analysis of MALDI and LC-MS/MS spectral data using sequence data (mainly for collagen)

Load peptides from the mammalian collagen sequences googlesheet and use the proline hydroxylation probabilites contained in the sheet to estimate the probability of each number of hydroxyprolines in each peptide

Description

Load peptides from the mammalian collagen sequences googlesheet and use the proline hydroxylation probabilites contained in the sheet to estimate the probability of each number of hydroxyprolines in each peptide

Usage

load.mcs(
  spp = "human",
  sheet = bioarch_mammal_sequences,
  massmin = 800,
  massmax = 3500,
  verbose = F
)

Arguments

spp	the name of the species whose peptides will be loaded.
sheet	the spreadsheet to load the data from. Must be the same format as bioarch_mammal_sequences, which is the latest version of the Bioarch mammal sequence dataset
massmin	the minimum mass for a sequence to be returned. Defaults to 800
massmax	the maximum mass for a sequence to be returned. Defaults to 3500
verbose	verbose processing with more detail. Useful for debugging

Examples

hcs <- load.mcs()
hcs <- load.mcs("goat")

bioarch-sjh/bacollite documentation built on Oct. 7, 2022, 3:34 p.m.