Difference between revisions of "PosiGene"
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Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | ||
==System Variables== | ==System Variables== | ||
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_BIN - executable directory |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DOC - documentation directory |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_EXE - example directory |
<!--Configuration--> | <!--Configuration--> | ||
Latest revision as of 21:22, 6 December 2019
Description
PosiGene is a tool that (i) detects positively selected genes on genome-scale, (ii) allows analysis of specific evolutionary branches, (iii) can be used in arbitrary species contexts and (iv) offers visualization of the candidates. As data input the program requires only the coding sequences of your chosen species set in fasta or genbank format. From them, orthologs, alignments and a phylogenetic tree are reconstructed to finally apply the branch-site test of positive selection. Filtering mechanisms are implemented to minimize the occurrence of false positives. PosiGene was tested on simulated as well as real data to ensure the reliability of the predicted positively selected genes.
Environment Modules
Run module spider posigene to find out what environment modules are available for this application.
System Variables
- HPC_POSIGENE_DIR - installation directory
- HPC_POSIGENE_BIN - executable directory
- HPC_POSIGENE_DOC - documentation directory
- HPC_POSIGENE_EXE - example directory