Function reference • mspredictr

All functions

filter_precursor(): Return the top n values from a vector

filter_topn(): Return the top n values from a vector

filter_xcorr(): Return a spectrum normalized according to xcorr publication

fragments(): Get a table of fragments

id_unqiue(): create a unique id value

index_fragments(): Return the fragment mz vector

index_mass(): Return a mass index.

mass_atomic(): Return the mass of an atom

mass_charged(): Return the charged mass

mass_fragments(): Return the fragment mz vector

mass_ladder(): Return the mass ladder vector

mass_ladder_named(): Convert a peptide string to a named variable

mass_neutral(): Return the neutral mass

mass_neutron(): Return the mass of a neutron

mass_proton(): Return the mass of a proton

mass_residue(): Return the mass of a amino acid residue

model_isotopes(): Convert a peptide string to a named variable

munge_seq(): non-iteratable helper function to clean up comet sequence strings

num_trunc(): truncate a number to a given decimal value

pairwise_delta(): Get the mass of an amino acid

peptide_length(): Return the mass of a peptide sequence

peptide_mass(): Return the mass of a peptide sequence

peptide_xleucine(): Return a I/L substituted sequence

plot_spectrum(): GGplot2 object of a ms2 spectrum

spectrum_accuracy(): Convert a peptide string to a named variable

spectrum_assign(): assign a table of fragment masses to a spectrum data object

spectrum_denoise(): Clean up a mass spectrum to expose only the most abundant peaks

spectrum_extract(): helper function to read in platform specific results

spectrum_isotopes(): Convert a peptide string to a named variable

spectrum_noise(): Convert a peptide string to a named variable

spectrum_simulate(): Convert a peptide string to a named variable

str_clean(): iteratable function to clean up comet sequence strings

str_peptide(): iteratable function to clean up comet sequence strings

str_sequence(): iteratable function to clean up comet sequence strings