Article
Identification of pathogen genomic variants through an integrated pipeline.
BMC bioinformatics - 3 Mar 2014
Manary Micah J, Singhakul Suriya S, Flannery Erika L, Bopp Selina Er, Corey Victoria C, Bright Andrew Taylor, McNamara Case W, Walker John R, Winzeler Elizabeth A
Abstract excerpt
BACKGROUND: Whole-genome sequencing represents a powerful experimental tool for pathogen research. We present methods for the analysis of small eukaryotic genomes, including a streamlined system (called Platypus) for finding single nucleotide and copy number variants as well as recombination events. RESULTS: We have validated our pipeline using four sets of Plasmodium falciparum drug resistant data containing 26...
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