MAGNAMWAR: an R package for genome-wide association studies of bacterial orthologs.
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- Record sourced from PubMed, PMID 29342236.
- Also identified by DOI 10.1093/bioinformatics/bty001 and PMC identifier 5972563.
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Abstract
Here we report on an R package for genome-wide association studies of orthologous genes in bacteria. Before using the software, orthologs from bacterial genomes or metagenomes are defined using local or online implementations of OrthoMCL. These presence-absence patterns are statistically associated with variation in user-collected phenotypes using the Mono-Associated GNotobiotic Animals Metagenome-Wide Association R package (MAGNAMWAR). Genotype-phenotype associations can be performed with several different statistical tests based on the type and distribution of the data. MAGNAMWAR is available on CRAN. john_chaston@byu.edu.
Medical subject headings
- Bacteria
- Bacterial Proteins
- Genome, Bacterial
- Genome-Wide Association Study
- Software