How to reduce the contig number and errorprone messages in denovo assembly using SPAdes?
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6.0 years ago

How to get lesser contig number through SPAdes assembly. Plateform- illumina ,pair end reads 2*150 Also I am getting warnings as follows:

1. Estimated mean insert size 152.79 is very small compared to read length 150
2.The determined erroneous connection coverage threshold may be determined improperly
Assembly • 1.2k views
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Hello sangita.sarma71991,

Please use the formatting bar (especially the code option) to present your post better. I've done it for you this time.
code_formatting

Also, you should add other information as well like

  • organism name

  • expected genome size

  • kmer used in assembly

  • total data that you have

  • coverage of the data

Thank you!

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