Description
Gene Orthologs for Model Organisms in a Tidy Data Format.
Description
Genomic analysis of model organisms frequently requires the use of databases based on human data or making comparisons to patient-derived resources. This requires harmonization of gene names into the same gene space. The 'babelgene' R package converts between human and non-human gene orthologs/homologs. The package integrates orthology assertion predictions sourced from multiple databases as compiled by the HGNC Comparison of Orthology Predictions (HCOP) (Wright et al. 2005 <doi:10.1007/s00335-005-0103-2>, Eyre et al. 2007 <doi:10.1093/bib/bbl030>, Seal et al. 2011 <doi:10.1093/nar/gkq892>).
README.md
babelgene
Genomic analysis of model organisms frequently requires the use of databases based on human data or making comparisons to patient-derived resources. This requires harmonization of gene names into the same gene space. The babelgene R package helps to simplify the conversion process. It provides gene orthologs/homologs:
- for multiple frequently studied model organisms, such as mouse, rat, fly, and zebrafish
- sourced from multiple databases
- as gene symbols, NCBI Entrez, and Ensembl IDs
- without accessing external resources and requiring an active internet connection
- in an R-friendly "tidy" format with one gene pair per row
Check the documentation website for more information.