compose_GPGx8cTerm: Compose a peptide with a defined AA sequence frequency

In cpanse/NestLink: NestLink an R data package to guide through Engineered Peptide Barcodes for In-Depth Analyzes of Binding Protein Ensembles

Compose a peptide with a defined AA sequence frequency

Description

composes, out of an as input given amino acid distribution, a randomly sampled amino acid sequence. compose_GPGx8cTerm, compose_GSx7cTerm, and compose_GPx10R belong to three groups composing different flycode (peptide) construction. The construction is given in the function name. For example, GPGx8cTerm, composes a flycode having as prefix GPG followed by eight (x8) amino acids followed by a cTerm sequence. The different construction will have different detectability properties as mass range and hydrophobicity values.

Usage

compose_GPGx8cTerm(pool = c(rep("A", 12), rep("S", 0), rep("T", 12),
  rep("N", 12), rep("Q", 12), rep("D", 8), rep("E", 0), rep("V", 12),
  rep("L", 0), rep("F", 0), rep("Y", 8), rep("W", 0), rep("G", 12),
  rep("P", 12)), cTerm = c("VFR", "VSR", "VFGIR", "VSGER"))

Arguments

pool	AA distributen.
cTerm	c-Terms

Value

a AA sequence

Author(s)

Christian Panse <[e-mail]> 2015

Examples

set.seed(1)
compose_GPGx8cTerm()
(FlyCodes <- replicate(10, compose_GPGx8cTerm()))
plot(parentIonMass(FlyCodes) ~ssrc(FlyCodes))

cpanse/NestLink documentation built on May 16, 2022, 2:33 a.m.