Difference between revisions of "NpScarf"
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(Created page with "Category:SoftwareCategory:Phylogenetics {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|npscarf}} |{{#vardefine:url|https://github.com/mdcao/npScarf}} <!--CONFIGURA...") |
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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 14:29, 4 September 2020
Description
npScarf (jsa.np.npscarf) is a program that scaffolds and completes draft genomes assemblies in real-time with Oxford Nanopore sequencing. The pipeline can run on a computing cluster as well as on a laptop computer for microbial datasets. It also facilitates the real-time analysis of positional information such as gene ordering and the detection of genes from mobile elements (plasmids and genomic islands).
Environment Modules
Run module spider npscarf to find out what environment modules are available for this application.
System Variables
- HPC_NPSCARF_DIR - installation directory
- HPC_NPSCARF_BIN - executable directory
Citation
If you publish research that uses npscarf you have to cite it as follows: