VirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data

@inproceedings{Ren2017VirFinderAN,
  title={VirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data},
  author={Jie Ren and Nathan A. Ahlgren and Yang Young Lu and Jed A. Fuhrman and Fengzhu Sun},
  booktitle={Microbiome},
  year={2017}
}
BACKGROUND Identifying viral sequences in mixed metagenomes containing both viral and host contigs is a critical first step in analyzing the viral component of samples. Current tools for distinguishing prokaryotic virus and host contigs primarily use gene-based similarity approaches. Such approaches can significantly limit results especially for short contigs that have few predicted proteins or lack proteins with similarity to previously known viruses. METHODS We have developed VirFinder, the… CONTINUE READING
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Alignment-free $d_2^*$ oligonucleotide frequency dissimilarity measure improves prediction of hosts from metagenomically-derived viral sequences

  • NA Ahlgren, J Ren, YY Lu, JA Fuhrman, F. Sun
  • Nucleic Acids Res
  • 2017
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