ACCNUMStats: Provides statistics on the types of ids used for the ACCNUM...

In Bioconductor/annotate: Annotation for microarrays

Provides statistics on the types of ids used for the ACCNUM environment of a given data package

Description

Given a data package name, ACCNUMStats counts how many of the probe ids are mapped to GenBank Accession numbers, UniGene ids, RefSeq ids, or Image clone ids.

Usage

ACCNUMStats(pkgName)
whatACC(accs)

Arguments

pkgName	pkgName a character string for the name of a BioC data package
accs	accs a vector of character string for the ids whose type will be determined

Details

The ACCNUM environment of each BioC data package contains mappings between probe ids and a set of public ids based on which mappings of probe ids to other annotation data can be obtained using public data sources. The set of ids were provided by a manufacturer or user at the time when the data package was built. The manufacturer/user provided ids can be of different types of public ids, such as GenBank Accession number, UniGene ids, etc..

ACCNUMStats counts the number of probes that are mapped to different types of public ids and have the results presented in a table.

Author(s)

Jianhua Zhang

References

The ACCNUM environment of a platform dependent BioC data package

Examples

  library("hgu95av2.db")
  ACCNUMStats("hgu95av2")

Bioconductor/annotate documentation built on Nov. 2, 2024, 4:40 p.m.