Re: [igv-help] Identifying regions of low sequence depth

[James Robinson]

Hi, this is the wrong forum for your question.

On Wed, Apr 12, 2017 at 11:02 AM, <shan....@uconn.edu> wrote:

I am an undergrad, and fairly new to bioinformatic but I am working on assembling contigs from a metagenome. I know the basic principle behind IDBA is in each iteration short and low-depth contigs are removed iteratively based on cutoff threshold from low to high and iteratively increases the Kmer etc. I was wondering if there is there any way to obtain information on the regions of low depth? I imagine one of the output files could help me indoing so. Any and all help would be much appreciated.

Thanks in advance,

Shan

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[Shan Kurkcu]

Hey, sorry about that. I saw after I had already posted it. 

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