babelgene
Gene Orthologs for Model Organisms in a Tidy Data Format
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
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.