Question: Capturing whole gene sequences from WGS metagenomics sample
gravatar for Lina F
21 months ago by
Lina F150
Boston, MA
Lina F150 wrote:

Hi all,

I have a metagenomics dataset and I am interested in retrieving full or nearly complete gene sequences.

I first tried assembling the data using Ray Meta to assemble the data. The average length of my contigs is between 700 and 900 bp long.

How can I further resolve these contigs?

My first thought was to use a tool like GATTACA to bin the contigs into groups of sequences that might denote species and then try and run an assembly program just on those groups.

Any feedback or suggestions for different approaches are appreciated!

ADD COMMENTlink modified 21 months ago by Sej Modha4.1k • written 21 months ago by Lina F150
gravatar for Sej Modha
21 months ago by
Sej Modha4.1k
Glasgow, UK
Sej Modha4.1k wrote:

If you have assemblies from two separate assemblers then you can try GARM.

ADD COMMENTlink written 21 months ago by Sej Modha4.1k
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