Difference between revisions of "Spruceup"
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(Created page with "Category:SoftwareCategory:Phylogenetics {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|spruceup}} |{{#vardefine:url|https://github.com/marekborowiec/spruceup}} <!-...") |
Moskalenko (talk | contribs) m (Text replacement - "#uppercase" to "uc") |
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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 |
<!--Configuration--> | <!--Configuration--> | ||
Latest revision as of 21:24, 6 December 2019
Description
spruceup is a Python tool for biologists (bioinformaticians, phylogeneticists, evolutionary biologists) doing inference on phylogenomic sequence alignments. It allows discovery and removal of individual poorly aligned sequences or sequence fragments (alignment rows), which is different from the problem of poorly aligned sequence blocks (alignment columns) commonly addressed by alignment trimming software.
Environment Modules
Run module spider spruceup to find out what environment modules are available for this application.
System Variables
- HPC_SPRUCEUP_DIR - installation directory
- HPC_SPRUCEUP_BIN - executable directory
Citation
If you publish research that uses spruceup you have to cite it as follows: