kaxonomy: KTU annotation

In poyuliu/KTU: “KTU” (K-mer Taxonomic Unit) algorithm improves biological relevance in microbiome associated study

KTU annotation

Description

KTU-based alignment-free taxonomy assignment

Usage

kaxonomy(
  dbRDS,
  taxaRDS,
  kmer.table,
  cos.cutff = 0.95,
  consensus = 0.8,
  candidate = 10,
  cores = 1
)

Arguments

dbRDS	Kmer formated database RDS file
taxaRDS	taxonomy ID RDS file
kmer.table	tetranucleotide frequency table for annotation
cos.cutff	cosine similarity cutoff, default=0.95
consensus	taxonomy assignment by consensus [0-1]
candidate	how many candidates (≥ cos.cutff) for taxonomy assignment
cores	Numbers of CPUs

poyuliu/KTU documentation built on May 23, 2022, 11:06 a.m.