Introduction

Rapid identification of non-human sequences (RINS) is an intersection-based pathogen detection workflow that utilizes a user-provided custom reference genome set for identification of non-human sequences in deep sequencing datasets. In <2 h, RINS correctly identified the known virus in the dataset SRR73726 and is compatible with any computer capable of running the prerequisite alignment and assembly programs. RINS accurately identifies sequencing reads from intact or mutated non-human genomes in a dataset and robustly generates contigs with these non-human sequences (Supplementary Material).RINS is available for free download at http://khavarilab.stanford.edu/resources.html.

Publications

  1. Rapid identification of non-human sequences in high-throughput sequencing datasets.
    Cite this
    Bhaduri A, Qu K, Lee CS, Ungewickell A, Khavari PA, 2012-04-01 - Bioinformatics (Oxford, England)

Credits

  1. Aparna Bhaduri
    Developer

    Veterans Affairs Palo Alto Healthcare System, Palo Alto

  2. Kun Qu
    Developer

  3. Carolyn S Lee
    Developer

  4. Alexander Ungewickell
    Developer

  5. Paul A Khavari
    Investigator

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Summary
AccessionBT000646
Tool TypeApplication
Category
PlatformsLinux/Unix
Technologies
User InterfaceTerminal Command Line
Download Count0
Submitted ByPaul A Khavari