ba_gxy_probs: Calculate the 'GXY' frame of a peptide, and use probabilities...

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

Calculate the 'GXY' frame of a peptide, and use probabilities of hdroxylation for prolines at different positions to estimate the probability of every possible level of hydroxylation

Description

Calculate the 'GXY' frame of a peptide, and use probabilities of hdroxylation for prolines at different positions to estimate the probability of every possible level of hydroxylation

Usage

ba_gxy_probs(
  seq,
  xprob = 0.05,
  yprob = 0.95,
  xyxprob = 0.5,
  xyyprob = 0.99,
  verbose = F
)

Arguments

seq	a peptide sequence
xprob	the probability of hydroxylation at the X position
yprob	the probability of hydroxylation at the Y position
xyxprob	the probability of hydroxylation at the X position if the Y position is also Proline
xyyprob	the probability of hydroxylaiton at the Y position if the X position is also Proline
verbose	set to TRUE for more verbose processing

Examples

ba_gxy_probs

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