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2.5 years ago
anicet.ebou
▴
170
I have a data set of plant viruses contaminated leaves. After filtering out the chloroplast sequences, I'm looking out for a good assembler to assemble the genome of the virus which is a dsDNA virus. I've looked for SPAdes but it looks like it cannot do the job, and in the literature people for in this type of analysis use a lot seqman pro. I'm looking for an open source alternative. Any help will be appreciated.
what kind of sequencing data do you have?
Paired-end Illumina. I have read that SPAdes is not always the best assembler for viruses. So I'm trying to find a good one.