cross_compose: Performing Crossdome screening

In oandrefonseca/crossdome: An R package to measure cross-reactivity risk in the sequence-space

Performing Crossdome screening

Description

Predicts relatedness among peptides in a given database. Low values are associated with cross-reactive candidates.

Usage

cross_compose(query, background, position_weight = rep(1, 9))

## S4 method for signature 'ANY,xrBackground'
cross_compose(query, background, position_weight = rep(1, 9))

Arguments

query	A peptide target. Only 9-mers are supported.
background	Background object create with cross_background
position_weight	A numeric vector derived from TCR hotspots

Value

Returns a xrResult object containing relatedness ranking

Examples

## Not run: 

query <- 'EVDPIGHLY'
data('mage_off_targets')

mage_off_targets <- mage_off_targets$peptide_sequence
background <- cross_background(off_targets = mage_off_targets, allele = "HLA-A*01:01")
result <- cross_compose(query = query, background = background)


## End(Not run)

oandrefonseca/crossdome documentation built on March 30, 2023, 7:10 p.m.