How to find out how many reads were used in contig assembly in metaSPADES?
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2.7 years ago
DNAngel ▴ 250

After running metaspades, I have my contigs.fasta files and all other log files but none of them show me what reads or how many reads were used in the creation of my contigs.

  1. Does metaspades even report such a thing?
  2. Does anyone know if the same read can be used in multiple contigs?
  3. After running the different kmers to produce the contigs, does metaspades combine the nodes from each kmer somehow? Or would NODE 1 in the final contigs file be from Kmer 77 whereas NODE 2 would come K 55 for example...
metaspades • 575 views

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