PlantTribes¶
Description¶
PlantTribes is a collection of automated modular analysis pipelines that utilize objective classifications of complete protein sequences from sequenced plant genomes to perform comparative evolutionary studies. It post-processes de novo assembly transcripts into putative coding sequences and their corresponding amino acid translations, locally assembles targeted gene families, estimates paralogous/orthologous pairwise synonymous/non-synonymous substitution rates for a set of gene sequences, classifies gene sequences into pre-computed orthologous plant gene family clusters, and builds gene family multiple sequence alignments and their corresponding phylogenies. * PLANTTRIBES_INDEXES - indexes directory
Environment Modules¶
Run module spider planttribes to find out what environment modules are available for this application.
Environment Variables¶
- HPC_PLANTTRIBES_DIR - installation directory
- HPC_PLANTTRIBES_BIN - executable directory
- HPC_PLANTTRIBES_DOC - documentation directory
Categories¶
phylogenetics