Difference between revisions of "DVGfinder"
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{{#if: {{#var: exe}}|==Additional Information== | {{#if: {{#var: exe}}|==Additional Information== | ||
| − | + | DVGfinder should be run with: | |
| − | + | dvgfinder -fq path_to_fastq_file [-r path_to_fasta_virus_reference] [-m margin] [-t threshold] [-n number_processes] [-s polarity] | |
|}} | |}} | ||
Revision as of 15:45, 30 June 2023
Description
DVGfinder is a tool that integrates the most used DVGs search algorithms, ViReMa-a and DI-tector, in a unique workflow, making the analysis of a sample easier and more intuitive. Also, DVGfinder_v3 implements a Gradient Boosting classifier to try to reduce the number of false positives introduced by the search algorithms and generates an HTML report with interactive tables and plots that facilitates a first exploration of the results.
Environment Modules
Run module spider dvgfinder to find out what environment modules are available for this application.
System Variables
- HPC_DVGFINDER_DIR - installation directory
- HPC_DVGFINDER_BIN - executable directory
- HPC_DVGFINDER_REF - reference data directory