Difference between revisions of "IQ-TREE"
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<!--CONFIGURATION: OPTIONAL (|1}} means it's ON)--> | <!--CONFIGURATION: OPTIONAL (|1}} means it's ON)--> | ||
|{{#vardefine:conf|}} <!--CONFIGURATION--> | |{{#vardefine:conf|}} <!--CONFIGURATION--> | ||
| − | |{{#vardefine:exe|}} <!--ADDITIONAL INFO--> | + | |{{#vardefine:exe|1}} <!--ADDITIONAL INFO--> |
|{{#vardefine:pbs|}} <!--PBS SCRIPTS--> | |{{#vardefine:pbs|}} <!--PBS SCRIPTS--> | ||
|{{#vardefine:policy|}} <!--POLICY--> | |{{#vardefine:policy|}} <!--POLICY--> | ||
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==System Variables== | ==System Variables== | ||
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory |
| + | * HPC_{{uc:{{#var:app}}}}_BIN - executable directory | ||
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{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
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{{#if: {{#var: exe}}|==Additional Information== | {{#if: {{#var: exe}}|==Additional Information== | ||
| − | + | There is no executable named 'iqtree' in this package starting with iq-tree/1.5.3. Use either iqtree-mpi or iqtree-omp-mpi depending on whether an MPI or a hybrid job is to be run. | |
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|}} | |}} | ||
<!--PBS scripts--> | <!--PBS scripts--> | ||
Latest revision as of 14:51, 14 December 2022
Description
IQ-Tree is a very efficient maximum likelihood phylogenetic software.
Required Modules
Parallel (MPI)
- gcc
- openmpi
- iq-tree
System Variables
- HPC_IQ-TREE_DIR - installation directory
- HPC_IQ-TREE_BIN - executable directory
Additional Information
There is no executable named 'iqtree' in this package starting with iq-tree/1.5.3. Use either iqtree-mpi or iqtree-omp-mpi depending on whether an MPI or a hybrid job is to be run.
Citation
If you publish research that uses iq-tree you have to cite it as follows:
- To cite IQ-TREE please use:
- To cite the ultrafast bootstrap (UFBoot) please use:
- IQ-TREE can use PLL for likelihood computations, if you use "-pll" option please cite: