Author: Rose, Rebecca; Constantinides, Bede; Tapinos, Avraam; Robertson, David L; Prosperi, Mattia
Title: Challenges in the analysis of viral metagenomes Document date: 2016_8_3
ID: x3u9i1vq_4
Snippet: Methodologically, most genomic sequence analysis software is not well suited for viral genomes. Generic tools that are able to address the challenges posed by viral sequences are often applicable only in limited circumstances. Choosing between approaches is made difficult due to an abundance of disparate yet functionally equivalent methodologies and in general a lack of rigorous benchmarks for viral datasets. While there is much ongoing research .....
Document: Methodologically, most genomic sequence analysis software is not well suited for viral genomes. Generic tools that are able to address the challenges posed by viral sequences are often applicable only in limited circumstances. Choosing between approaches is made difficult due to an abundance of disparate yet functionally equivalent methodologies and in general a lack of rigorous benchmarks for viral datasets. While there is much ongoing research in this area, both the sensitive detection of previously characterized viruses and viral discovery remain key challenges open for innovation. Here we survey the landscape of available approaches for analyzing both known and unknown viruses within genomic and metagenomic samples, with focus on their practical and methodological suitability for use by a broad spectrum of researchers seeking to characterize viral metagenomes.
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