Difference between revisions of "AMRPlusPlus"
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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 |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DAT - data directory |
<!--Configuration--> | <!--Configuration--> | ||
Latest revision as of 21:19, 6 December 2019
Description
The goal of many metagenomics studies is to characterize the content and relative abundance of sequences of interest from the DNA of a given sample or set of samples. You may want to know what is contained within your sample or how abundant a given sequence is relative to another.
Often, metagenomics is performed when the answer to these questions must be obtained for a large number of targets where techniques like multiplex PCR and other targeted methods would be too cumbersome to perform. AmrPlusPlus can process the raw data from the sequencer, identify the fragments of DNA, and count them. It also provides a count of the polymorphisms that occur in each DNA fragment with respect to the reference database.
Environment Modules
Run module spider amrplusplus to find out what environment modules are available for this application.
System Variables
- HPC_AMRPLUSPLUS_DIR - installation directory
- HPC_AMRPLUSPLUS_BIN - executable directory
- HPC_AMRPLUSPLUS_DAT - data directory