Question: Get Reads from a Bin
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gravatar for irazoqui.matias
15 months ago by
irazoqui.matias10 wrote:

Hi,

I've got a series of bins (fasta files) obtained with MetaBAT. Each file has all the contigs that were binned together. My question is if there's any way to extract the reads (from the FastQ file) mapped to each of the contigs in a bin. I have the bam mapping files.

My idea is to reassemble this reads (using something like SPAdes), to see if this results in better contigs (assuming that the reads that were binned together should come from the same genome, the assembly should be better)

Thanks!

Matías

metagenomics samtools binning • 343 views
ADD COMMENTlink modified 15 months ago • written 15 months ago by irazoqui.matias10
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