Difference between revisions of "SEPP"
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|{{#vardefine:app|sepp}} | |{{#vardefine:app|sepp}} | ||
Latest revision as of 20:39, 12 August 2022
Description
SEPP stands for "SATe-enabled Phylogenetic Placement", and addresses the problem of phylogenetic placement of short reads into reference alignments and trees.
Environment Modules
Run module spider sepp to find out what environment modules are available for this application.
System Variables
- HPC_SEPP_DIR - installation directory
- HPC_SEPP_BIN - executable directory
- HPC_SEPP_CONF - configuration examples directory
Additional Information
The sepp module includes all three components of the SEPP suite - SEPP, TIPP, and UPP - the three methods use ensembles of Hidden Markov Models (HMMs) in different ways, each focusing on a different problem..
- SEPP - SATe-enabled phylogenetic placement
- TIPP - Taxonomic identification and phylogenetic profiling
- UPP - Ultra-large alignments using Phylogeny-aware Profiles