DCODE-package {DCODE} | R Documentation |
List Linear n-Peptide Constraints for Overlapping Protein Regions
Description
Traversal graph algorithm for listing linear n-peptide constraints for overlapping protein regions.
Author(s)
S. Lebre
Maintainer: S. Lebre <sophie.lebre@umontpellier.fr>
References
Lebre and Gascuel, The combinatorics of overlapping genes (freely available from arXiv at:
http://arxiv.org/abs/1602.04971).
Examples
## Not run:
# 1) Build peptideList, used by function getConstraint.
mydata <- build_data()
aaList <- mydata$aaList
geneticCode <- mydata$geneticCode
peptideList <- mydata$peptideList
# 2) Ask for the constraint induced on a chosen peptide in a chosen overlapping frame
## amino acid contraints
getConstraint("C", frame = -2, code=geneticCode, pepList=peptideList)
getConstraint("D", frame = 1, code=geneticCode, pepList=peptideList)
## 3-peptide contraints
getConstraint("CWC",frame = -2, code=geneticCode, pepList=peptideList)
## 5-peptide contraints
getConstraint("CWCCC",frame = -2, code=geneticCode, pepList=peptideList)
## End(Not run)
[Package DCODE version 1.0 Index]