Illumina Hiseq 2000 Reads Assembly (Genomic Dna)
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9.6 years ago
Rahul Sharma ▴ 650

Hi,

I have Illumina HiSeq 2000 reads with ~100-140 read length (Genomic DNA). Which assembler is the best for this data assembly. I used velvet for 76bp read size, It will not work here, I think.

Thanks in advance, Rahul

illumina hiseq genome assembly • 2.8k views
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You'll get more productive replies from everyone if you give more information. Some of the information people might need to be able to help are: What genome size. What ploidy. What depth of coverage. What type of species. Why do you think velvet works for 76bp but not 100bp? Also, look up the Assemblathon 1 and 2 papers.

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HI,

Thanks!! By the way it was very quick question. I installed velvet with large k-mer size and it worked. Thanks

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OK - does that mean you are now happy and the question can be closed? cheers Zam

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9.6 years ago

This is probably a good place to highlight the assemblathon 2.

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