Difference between revisions of "Quickmerge"
Jump to navigation
Jump to search
(Created page with "Category:SoftwareCategory:Phylogenetics {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|quickmerge}} |{{#vardefine:url|https://github.com/mahulchak/quickmerge}} <!-...") |
Moskalenko (talk | contribs) m (Text replacement - "#uppercase" to "uc") |
||
| Line 25: | Line 25: | ||
Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | 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 - executable directory |
<!--Configuration--> | <!--Configuration--> | ||
Latest revision as of 21:24, 6 December 2019
Description
quickmerge uses a simple concept to improve contiguity of genome assemblies based on long molecule sequences, often with dramatic outcomes. The program uses information from assemblies made with Illumina short reads and Pacific Biosciences or Oxford Nanopore long reads to improve contiguities of an assembly generated with long reads alone. This is counterintuitive because Illumina short reads are not typically considered to cover genomic regions which PacBio and ONP long reads cannot. For more details, please see the paper that describes it. Citation for ONP assembly merging coming soon!
Environment Modules
Run module spider quickmerge to find out what environment modules are available for this application.
System Variables
- HPC_QUICKMERGE_DIR - installation directory
- HPC_QUICKMERGE_BIN - executable directory