local_msig: Query gene set names from local data

In msig: An R Package for Exploring Molecular Signatures Database

Description

Query gene set names from local data

Usage

local_msig(
  geneset = NULL,
  description = NULL,
  collection = NULL,
  sub_collection = NULL,
  organism = NULL,
  contributor = NULL,
  contributor_org = NULL,
  author = NULL,
  chip = NULL,
  gene = NULL,
  geneset_fuzzy = NULL,
  collection_fuzzy = NULL,
  sub_collection_fuzzy = NULL,
  organism_fuzzy = NULL,
  contributor_fuzzy = NULL,
  contributor_org_fuzzy = NULL,
  author_fuzzy = NULL,
  chip_fuzzy = NULL,
  gene_fuzzy = NULL
)

Arguments

geneset	one sql format character for exact match
description	one sql format character for exact match
collection	one sql format character for exact match
sub_collection	one sql format character for exact match
organism	one sql format character for exact match
contributor	one sql format character for exact match
contributor_org	one sql format character for exact match
author	one sql format character for exact match
chip	one sql format character for exact match
gene	one sql format character for exact match
geneset_fuzzy	fuzzy match
collection_fuzzy	fuzzy match
sub_collection_fuzzy	fuzzy match
organism_fuzzy	fuzzy match
contributor_fuzzy	fuzzy match
contributor_org_fuzzy	fuzzy match
author_fuzzy	fuzzy match
chip_fuzzy	fuzzy match
gene_fuzzy	fuzzy match

Value

one dataframe with attribute of msig_local.

Examples

x <- local_msig('IMMUNE_RESPONSE')
x <- local_msig('IMMUNE_RESPONSE|IMMUNE_SYSTEM_PROCESS')

msig documentation built on June 29, 2021, 9:08 a.m.