Question: How to use SPADES assembler to de novo assembly contigs
0
gravatar for 201314918
2.1 years ago by
2013149180
2013149180 wrote:

Hi guys I have Contigs thet were generated true the SPADES assembler I then used mitochondrial genomes to search for contigs that match with my contigs. Now I would like to find out, how can I use the SPADES assembler to join those contigs into scaffolds?. I dont have a feference for my species. I am in need of the command that I need to run in order to do this job.

Thank you

assembly • 1.5k views
ADD COMMENTlink modified 2.1 years ago by Buffo1.8k • written 2.1 years ago by 2013149180

What is the assembly quality? Why do you need scaffolds?

ADD REPLYlink modified 2.1 years ago • written 2.1 years ago by Asaf7.2k
1
gravatar for Buffo
2.1 years ago by
Buffo1.8k
Buffo1.8k wrote:

SPAdes by default creates a scaffold.fa file in the same output directory

ADD COMMENTlink modified 2.1 years ago • written 2.1 years ago by Buffo1.8k
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