An open-source software package that builds on popular orthology-calling approaches making highly customizable and detailed pangenome analyses of microorganisms accessible to nonbioinformaticians. It can cluster homologous gene families using the bidirectional best-hit, COGtriangles, or OrthoMCL clustering algorithms. Clustering stringency can be adjusted by scanning the domain composition of proteins using the HMMER3 package, by imposing desired pairwise alignment coverage cutoffs, or by selecting only syntenic genes.
module spider get_homologues to find out what environment modules are available for this application.
- HPC_GET_HOMOLOGUES_DIR - installation directory
- HPC_GET_HOMOLOGUES_BIN - executable directory