sortDomains: Sort one domain dataframe based on the other domain dataframe

In BIONF/PhyloProfile: PhyloProfile

Sort one domain dataframe based on the other domain dataframe

Description

Sort domain dataframe of one protein (either seed or ortholog) based on the dataframe of the its paired protein, in order to bring the common domain feature in the same order which make it easy for comparing.

Usage

sortDomains(seedDf, orthoDf)

Arguments

seedDf	data of seed protein
orthoDf	data of ortholog protein

Value

Dataframe contains sorted domain list.

Author(s)

Vinh Tran [e-mail]

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",]
seedDf <- subDf[subDf$orthoID != "101621at6656:DROME@7227@1:Q9VG04",]
# sort
PhyloProfile:::sortDomains(seedDf, orthoDf)

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