convertid: Convert Gene IDs Between Each Other and Fetch Annotations from
Biomart
Gene Symbols or Ensembl Gene IDs are converted using the Bimap interface in 'AnnotationDbi' in convertId2() but
that function is only provided as fallback mechanism for the most common use cases in data analysis. The main function
in the package is convert.bm() which queries BioMart using the full capacity of the API provided through the
'biomaRt' package. Presets and defaults are provided for convenience but all "marts", "filters" and "attributes"
can be set by the user. Function convert.alias() converts Gene Symbols to Aliases and vice versa and function likely_symbol()
attempts to determine the most likely current Gene Symbol.
| Version: |
0.1.8 |
| Depends: |
AnnotationDbi |
| Imports: |
org.Hs.eg.db, org.Mm.eg.db, plyr, stringr, biomaRt, stats, xml2, utils, rappdirs, assertthat, methods, httr, BiocFileCache |
| Published: |
2023-11-29 |
| DOI: |
10.32614/CRAN.package.convertid |
| Author: |
Vidal Fey [aut, cre],
Henrik Edgren [aut] |
| Maintainer: |
Vidal Fey <vidal.fey at gmail.com> |
| License: |
GPL-3 |
| NeedsCompilation: |
no |
| CRAN checks: |
convertid results |
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