title: Cluster of Acute Flaccid Myelitis in Pediatric Patients -- Maricopa County, Arizona, October 2016
design: Amplicons were created targetting the EVD68 VP1 gene as well as a Human gapDH control. Libraries for each sample were created with dual indexing and pooled together for sequencing using MiSeq Reagent Kit v3. After sequencing, reads were adapter trimmed using Trimmomatic v0.32 and aligned to the reference sequences using bowtie2. Only the trimmed reads aligning to EVD68 are included.