Question: (Closed) Troubles in de novo assembly of an insect genome
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gravatar for aida.shahraki
6 months ago by
aida.shahraki10 wrote:

I need to assemble an insect genome. The genome size is around 500Mb. I have performed genome sequencing in illumina platform, 150bp paired-end reads. I have trimmed forward and reverse reads and each of this files is around 45Gb. I have tried to assemble this dataset using SOAPdenovo and Abyss, but the process has killed for each try. Actually, I am running Abyss on a system with fairly good RAM capacity (128GB) but still, it is killed. I have tried at 64 and 96 Kmers. I do really need to assemble dataset as soon as it is possible, so I would be so grateful if anyone help me how can I tackle the problem.

abyss soap assembly • 229 views
ADD COMMENTlink written 6 months ago by aida.shahraki10

Hello aida.shahraki!

We believe that this post does not fit the main topic of this site.

This forum is for questions about using Galaxy https://galaxyproject.github.io/. For general bioinformatics help, please try https://www.biostars.org.

For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.

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Cheers!

ADD REPLYlink written 6 months ago by Jennifer Hillman Jackson25k
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