Author: Stagegaard, Julia; Kurth, Andreas; Stern, Daniel; Dabrowski, Piotr Wojciech; Pocknell, Ann; Nitsche, Andreas; Schrick, Livia
Title: Seasonal recurrence of cowpox virus outbreaks in captive cheetahs (Acinonyx jubatus) Document date: 2017_11_9
ID: 0oa4x05s_9
Snippet: Assembly of the sequenced representative specimens' genomes was performed in three steps. First, reads originating from the host were separated from those originating from the virus by using RAMBO-K [16] . Then genomes were assembled by using a combination of velvet [17] and SOAPdenovo2 [18] , yielding the entire viral genome in a single contig of over 200 kb in length in all cases (see S1 Table) . Finally, error correction was performed by mappi.....
Document: Assembly of the sequenced representative specimens' genomes was performed in three steps. First, reads originating from the host were separated from those originating from the virus by using RAMBO-K [16] . Then genomes were assembled by using a combination of velvet [17] and SOAPdenovo2 [18] , yielding the entire viral genome in a single contig of over 200 kb in length in all cases (see S1 Table) . Finally, error correction was performed by mapping all reads from each sample to the respective assembled genome by using bowtie2 [19] , and discrepancies were visually inspected and, where necessary, corrected manually by using Geneious R9 [20] .
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