Difference between revisions of "Proovread"
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(Created page with "Category:SoftwareCategory:BioinformaticsCategory:GenomicsCategory:NGS {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|Proovread}} |{{#vardefine:url|http://p...") |
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| − | [[Category:Software]][[Category: | + | [[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]] |
{|<!--CONFIGURATION: REQUIRED--> | {|<!--CONFIGURATION: REQUIRED--> | ||
|{{#vardefine:app|Proovread}} | |{{#vardefine:app|Proovread}} | ||
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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--> | ||
|{{#vardefine:testing|}} <!--PROFILING--> | |{{#vardefine:testing|}} <!--PROFILING--> | ||
|{{#vardefine:faq|}} <!--FAQ--> | |{{#vardefine:faq|}} <!--FAQ--> | ||
| − | |{{#vardefine:citation|}} <!--CITATION--> | + | |{{#vardefine:citation|1}} <!--CITATION--> |
|{{#vardefine:installation|}} <!--INSTALLATION--> | |{{#vardefine:installation|}} <!--INSTALLATION--> | ||
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Large scale high-accuracy BioPac correction through iterative short read consensus. | Large scale high-accuracy BioPac correction through iterative short read consensus. | ||
<!--Modules--> | <!--Modules--> | ||
| − | == | + | ==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_{{ | + | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_BIN |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_CONF |
<!--Configuration--> | <!--Configuration--> | ||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
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<!--Run--> | <!--Run--> | ||
{{#if: {{#var: exe}}|==Additional Information== | {{#if: {{#var: exe}}|==Additional Information== | ||
| − | + | ||
| + | For advanced usage copy the configuration file from $HPC_PROOVREAD_CONF to your working directory and adjust as needed for the analysis at hand. | ||
|}} | |}} | ||
<!--PBS scripts--> | <!--PBS scripts--> | ||
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<!--Citation--> | <!--Citation--> | ||
{{#if: {{#var: citation}}|==Citation== | {{#if: {{#var: citation}}|==Citation== | ||
| − | + | ||
| − | + | proovread: large-scale high accuracy PacBio correction through iterative short read consensus. Hackl, T.; Hedrich, R.; Schultz, J.; Förster, F. (2014). | |
| + | |||
|}} | |}} | ||
<!--Installation--> | <!--Installation--> | ||
Latest revision as of 20:27, 12 August 2022
Description
Large scale high-accuracy BioPac correction through iterative short read consensus.
Environment Modules
Run module spider Proovread to find out what environment modules are available for this application.
System Variables
- HPC_PROOVREAD_DIR - installation directory
- HPC_PROOVREAD_BIN
- HPC_PROOVREAD_CONF
Additional Information
For advanced usage copy the configuration file from $HPC_PROOVREAD_CONF to your working directory and adjust as needed for the analysis at hand.
Citation
proovread: large-scale high accuracy PacBio correction through iterative short read consensus. Hackl, T.; Hedrich, R.; Schultz, J.; Förster, F. (2014).