Pipelines to do MinION sequencing of Zika virus

Consensus genomes

Genomes are collected into FASTAS with "good" coverage (>80%) and with "partial" coverage (50%-80%). FASTA headers obey the following format:

strainsample_idcollection_datecountrydivisionlocation
USVI/1/2016VI12016-09-28usvisaint_croixsaint_croix

USVI samples

Isolates USVI/1/2016 to USVI/5/2016 in ZIKA_USVI_good.fasta and ZIKA_USVI_partial.fasta.

Please cite as:

Black A, Potter B, Dudas G, Feldstein L, Ellis BR, Ellis EM, Bedford T. 2017. Genetic characterization of the Zika virus epidemic in the US Virgin Islands. DOI: 10.5281/zenodo.229477.

Citation is subject to revision.

Disclaimer: These should be considered preliminary data. We have made them available in the hopes that they will be useful. There is one restriction however, please get contact us before using this data in any publication. Let us know if you have any questions or comments. Email us at trevor@bedford.io."