Source Code

VirusDetect for Windows

author(s) Flores, Mirella - Kreuze, Jan
from International Potato Center (CIP)
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themes
regions
  • South America
  • Latin America and the Caribbean
  • Americas
  • World
citation

Flores, Mirella; Kreuze, Jan, 2020, "VirusDetect for Windows", https://doi.org/10.21223/H3FE8W, International Potato Center, V1

Publications and datasets provided via GARDIAN

Abstract

VirusDetect is a software package that can efficiently and exhaustively analyze large-scale sRNA datasets for virus identification. The program performs reference-guided assembly by aligning sRNA reads to the known virus reference database (GenBank gbvrl) as well as de novo assembly using Velvet with automated parameter optimization. The assembled contigs are compared to the reference virus sequences for virus identification. The contigs were treated as undetermined contigs if they are not hit to any known viruses. The siRNA profile of these undetermined contigs are provided as guidance to discovery novel viruses which do not show sequence similarity with known viruses.

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