RNAmmer: Difference between revisions
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== | ==Environment Modules== | ||
Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | |||
< | |||
==System Variables== | ==System Variables== | ||
* HPC_{{uc:{{#var:app}}}}_DIR - installation directory | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory | ||
Latest revision as of 17:35, 10 June 2022
Description
RNAmmer predicts ribosomal RNA genes in full genome sequences by util-ising two levels of Hidden Markov Models: An initial spotter model searches both strands. The spotter model is constructed from highly conserved loci within a structural alignment of known rRNA sequences. Once the spotter model detects an approximate position of a gene, flanking regions are extracted and parsed to the full model which matches the entire gene. By enabling a two-level approach it is avoided to run a full model through an entire genome sequence allowing faster predictions.
Environment Modules
Run module spider rnammer to find out what environment modules are available for this application.
System Variables
- HPC_RNAMMER_DIR - installation directory
Citation
If you publish research that uses rnammer you have to cite it as follows: