assign the top term by score ranking

assign_terms {annotation.terms}

R Documentation

assign the top term by score ranking

Description

Usage

assign_terms(alignment,
    term.maps = NULL,
    top.best = TRUE,
    direct.term.maps = FALSE,
    filter.unknown = FALSE,
    identities.cut = 0);

Arguments

alignment

the ncbi localblast alignment result, it can be the BestHit array or the DiamondAnnotation array.

term.maps

a R# list object of the term id mapping data: the name of each list element is the term name, and the element value is a character vector of the hit name that belongs to the corresponding term. [as list]

env

the R# runtime environment object. [as Environment]

Authors

seqtoolkit

Value

a vector of the RankTerm term annotation result;

this function returns a R# error message object if the input alignment data can not be cast to a best hit or diamond annotation collection.

clr value class

RankTerm

[Package annotation.terms version 1.0.0.0 Index]