FastGEAR

Description

fastgear website

fastGEAR identifies lineages in diverse microbial alignments and recombinations between them and from external origins. The algorithm detects both recent recombinations (affecting a few isolates) and ancestral recombinations between detected lineages (affecting entire lineages), thus providing insight into recombinations affecting deep branches of the phylogenetic tree. Citation: Mostowy, R., Croucher, N.J., Andam, C.P., Corander, J., Hanage, W.P. and Marttinen, P. (2017). Efficient inference of recent and ancestral recombination within bacterial populations. Molecular Biology and Evolution, 34(5), 1167-1182. https://doi.org/10.1093/molbev/msx066

Environment Modules

Run module spider fastgear to find out what environment modules are available for this application.

Environment Variables

• HPC_FASTGEAR_DIR - installation directory

Categories

biology, genomics