geneSim: geneSim

In GuangchuangYu/DOSE: Disease Ontology Semantic and Enrichment analysis

geneSim

Description

measuring similarities bewteen two gene vectors.

Usage

geneSim(
  geneID1,
  geneID2 = NULL,
  ont = "HDO",
  organism = "hsa",
  measure = "Wang",
  combine = "BMA"
)

Arguments

geneID1	entrez gene vector
geneID2	entrez gene vector
ont	one of "HDO" and "MPO"
organism	one of "hsa" and "mmu"
measure	one of "Wang", "Resnik", "Rel", "Jiang", and "Lin".
combine	One of "max", "avg", "rcmax", "BMA" methods, for combining semantic similarity scores of multiple DO terms associated with gene/protein.

Details

provide two entrez gene vectors, this function will calculate their similarity.

Value

score matrix

Author(s)

Guangchuang Yu https://yulab-smu.top

Examples

g <- c("835", "5261","241", "994")
geneSim(g)

GuangchuangYu/DOSE documentation built on Oct. 31, 2024, 9:15 a.m.