NextDenovo: Difference between revisions
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Created page with "Category:SoftwareCategory:Phylogenetics {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|nextdenovo}} |{{#vardefine:url|https://github.com/Nextomics/NextDenovo}} <!-..." |
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==System Variables== | ==System Variables== | ||
* HPC_{{uc:{{#var:app}}}}_DIR - installation directory | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory | ||
* HPC_{{uc:{{#var:app}}}}_BIN - executable directory | |||
<!--Configuration--> | <!--Configuration--> | ||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
Latest revision as of 18:03, 10 May 2021
Description
NextDenovo is a string graph-based de novo assembler for long reads (CLR, HiFi and ONT). It uses a "correct-then-assemble" strategy similar to canu (no correction step for PacBio Hifi reads), but requires significantly less computing resources and storages. After assembly, the per-base accuracy is about 98-99.8%, to further improve single base accuracy, please use NextPolish.
Environment Modules
Run module spider nextdenovo to find out what environment modules are available for this application.
System Variables
- HPC_NEXTDENOVO_DIR - installation directory
- HPC_NEXTDENOVO_BIN - executable directory
Citation
If you publish research that uses nextdenovo you have to cite it as follows:
We are now preparing the manuscript of NextDenovo, so if you use NextDenovo now, please cite the official website (https://github.com/Nextomics/NextDenovo)