resolveOverlapFeatures: Modify domain dataframe to resolve overlapped...
In BIONF/PhyloProfile: PhyloProfile

resolveOverlapFeatures

R Documentation

Modify domain dataframe to resolve overlapped domains/features

Description

Modify domain dataframe to resolve overlapped domains/features

Usage

resolveOverlapFeatures(domainDf)

Arguments

domainDf

input domain dataframe

Value

Domain dataframe with modified feature names that join multiple domains of the same type that are not overlapped

Author(s)

Vinh Tran tran@bio.uni-frankfurt.de

Examples

# get domain data
seedID <- "101621at6656"
domainFile <- system.file(
    "extdata", "domainFiles/101621at6656.domains",
    package = "PhyloProfile", mustWork = TRUE
)
domainDf <- parseDomainInput(seedID, domainFile, "file")
# get seedDf and orthoDf
subDf <- domainDf[
    domainDf$seedID ==
    "101621at6656#101621at6656:AGRPL@224129@0:224129_0:001955:1",]
orthoDf <- subDf[subDf$orthoID == "101621at6656:DROME@7227@1:Q9VG04",]
# resolve overlapped featuers
PhyloProfile:::resolveOverlapFeatures(orthoDf)

BIONF/PhyloProfile documentation built on Dec. 18, 2024, 7:33 a.m.