SSU-ALIGN¶

Description¶

SSU-ALIGN is a software package for creating, masking and visualizing small subunit ribosomal RNA (SSU rRNA) multiple sequence alignments. It uses profile probabilistic models called "profile hidden Markov models" (profile HMMs) and "covariance models" (CMs) that represent archaeal 16S SSU rRNA, bacterial 16S SSU rRNA and eukaryotic 18S SSU rRNA. Each of these profile models was built from a reference alignment derived from Robin Gutell's Comparative RNA Website database (CRW) (Cannone et al., BMC Bionformatics. 2002; 3:2.) as described in the user's guide. The alignments created by SSU-ALIGN explicitly take into account the conserved secondary structure of SSU as annotated by CRW. * MANPATH - man pages direcotry * SSUALIGNDIR - share directory

Environment Modules¶

Run module spider ssu-align to find out what environment modules are available for this application.

Environment Variables¶

HPC_SSU_ALIGN_DIR - installation directory
HPC_SSU_ALIGN_BIN - executable directory

Categories¶

phylogenetics