VADR: validation and annotation of virus sequence submissions to GenBank

Alejandro A Schäffer; Eneida Hatcher; Linda Yankie; Lara Shonkwiler; J Rodney Brister; Ilene Karsch-Mizrachi; Eric P Nawrocki

To test the joint hypothesis that the VADR operational semantics are more cautious and more rigorous than what was done before its development (pre-2018), we collected a set of test sequences that were last modified no later than December 31, 2017. Specifically, we ran each of the following two Entrez Nucleotide queries on June 24 AND 50:20000[slen] Distinct "complete genome" and "partial" sequence datasets were created to distinguish behavior on likely complete genomes from behavior on likely partial sequences. To separate the likely complete genomes, we used the empirical cumulative distribution functions of how many sequences returned by the above queries have each length, x, and are (not) annotated as "complete genome". The selected thresholds were > 7380nt This article is a US Government work. It is not subject to copyright under 17 USC 105 and is also made available for use under a CC0 license.