genInfo: Get gene related information

In genekitr: Gene Analysis Toolkit

Get gene related information

Description

Get gene related information

Usage

genInfo(
  id = NULL,
  org = "hs",
  unique = FALSE,
  keepNA = TRUE,
  hgVersion = c("v38", "v19")
)

Arguments

id	Gene id (symbol, ensembl or entrez id) or uniprot id. If this argument is NULL, return all gene info.
org	Latin organism shortname from 'ensOrg_name'. Default is human.
unique	Logical, if one-to-many mapping occurs, only keep one record with fewest NA. Default is FALSE.
keepNA	If some id has no match at all, keep it or not. Default is TRUE.
hgVersion	Select human genome build version from "v38" (default) and "v19".

Value

A 'data.frame'.

Examples

# example1: input list with fake id and one-to-many mapping id
x <- genInfo(id = c(
  "MCM10", "CDC20", "S100A9", "MMP1", "BCC7",
  "FAKEID", "TP53", "HBD", "NUDT10"
))

# example2: statistics of human gene biotypes
genInfo(org = "hs") %>%
  {
    table(.$gene_biotype)
  }

# example3: use hg19 data
x <- genInfo(id = c("TP53","BCC7"), hgVersion = "v19")

# example4: search genes with case-insensitive
x <- genInfo(id = c("tp53","nc886","FAke","EZh2"), org = "hs", unique = TRUE)

genekitr documentation built on Sept. 8, 2023, 6:06 p.m.