Difference between revisions of "Newick-utils"

Latest revision as of 14:25, 1 September 2021

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Newick utils

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-[[Category:Software]][[Category:Bioinformatics]][[Category:Phylogenetics]]
+#REDIRECT [[Newick utils]]
-{|<!--CONFIGURATION: REQUIRED-->
-|{{#vardefine:app|newickutils}}
-|{{#vardefine:url|http://cegg.unige.ch/newick_utils}}
-<!--CONFIGURATION: OPTIONAL (|1}} means it's ON)-->
-|{{#vardefine:conf|}}           <!--CONFIGURATION-->
-|{{#vardefine:exe|}}            <!--ADDITIONAL INFO-->
-|{{#vardefine:pbs|}}            <!--PBS SCRIPTS-->
-|{{#vardefine:policy|}}         <!--POLICY-->
-|{{#vardefine:testing|}}       <!--PROFILING-->
-|{{#vardefine:faq|}}             <!--FAQ-->
-|{{#vardefine:citation|1}}       <!--CITATION-->
-|{{#vardefine:installation|}} <!--INSTALLATION-->
-|}
-<!--BODY-->
-<!--Description-->
-{{#if: {{#var: url}}|
-{{App_Description|app={{#var:app}}|url={{#var:url}}|name={{#var:app}}}}|}}
-The Newick Utilities are a suite of Unix shell tools for processing phylogenetic trees. We distribute the package under the BSD License. Functions include re-rooting, extracting subtrees, trimming, pruning, condensing, drawing (ASCII graphics or SVG).
-<!--Modules-->
-==Required Modules==
-===Serial===
-* {{#var:app}}
-<!--
-===Parallel (OpenMP)===
-* intel
-* {{#var:app}}
-===Parallel (MPI)===
-* intel
-* openmpi
-* {{#var:app}}
--->
-==System Variables==
-* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
-<!--Configuration-->
-{{#if: {{#var: conf}}|==Configuration==
-See the [[{{PAGENAME}}_Configuration]] page for {{#var: app}} configuration details.
-|}}
-<!--Run-->
-{{#if: {{#var: exe}}|==Additional Information==
-WRITE_ADDITIONAL_INSTRUCTIONS_ON_RUNNING_THE_SOFTWARE_IF_NECESSARY
-|}}
-<!--PBS scripts-->
-{{#if: {{#var: pbs}}|==PBS Script Examples==
-See the [[{{PAGENAME}}_PBS]] page for {{#var: app}} PBS script examples.
-|}}
-<!--Policy-->
-{{#if: {{#var: policy}}|==Usage Policy==
-WRITE USAGE POLICY HERE (Licensing, usage, access).
-|}}
-<!--Performance-->
-{{#if: {{#var: testing}}|==Performance==
-WRITE_PERFORMANCE_TESTING_RESULTS_HERE
-|}}
-<!--Faq-->
-{{#if: {{#var: faq}}|==FAQ==
-*'''Q:''' **'''A:'''|}}
-<!--Citation-->
-{{#if: {{#var: citation}}|==Citation==
-If you publish research that uses {{#var:app}} you have to cite it as follows:
-The Newick Utilities: High-throughput Phylogenetic tree Processing in the UNIX Shell. ''Thomas Junier and Evgeny M. Zdobnov''. Bioinformatics 2010 26:1669-1670
-[http://bioinformatics.oxfordjournals.org/content/26/13/1669.full http://bioinformatics.oxfordjournals.org/content/26/13/1669.full]
-doi:10.1093/bioinformatics/btq243
-|}}
-<!--Installation-->
-{{#if: {{#var: installation}}|==Installation==
-See the [[{{PAGENAME}}_Install]] page for {{#var: app}} installation notes.|}}
-<!--Turn the Table of Contents and Edit paragraph links ON/OFF-->
-__NOTOC____NOEDITSECTION__
-=Validation=
-* Validated 4/5/2018

Difference between revisions of "Newick-utils"

Latest revision as of 14:25, 1 September 2021

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