Generating scaffolds from contigs using SPAdes
Hi all,
I only have access to the contents of a genome with over 66.000 contigs, so I want to see whether I can generate longer scaffolds from that many contigs. Do you think SPAdes can take contigs as input instead of reads? In not, do you know of another tool that can take them??
Many thanks
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Do you have any additional sequencing information or can you get the raw data or any genomic raw data for that organism?
SPAdes uses k-mers for building the initial de Bruijn graph. No way this would work if contigs were used as reads..