Question: retrieve the properties of the reads on NCBI on the command line
gravatar for Chvatil
3 days ago by
Chvatil50 wrote:

Hi everyone, I was wondering if anyone knows a quick way by command line to find information on the reads used for an assembly, by information I mean especially if it was paired end or mate end since if it is only an assembly made by pairend I will use Reapr in order to break missasemblies scaffols.

I need this information for several hundred assemblies, here is an example:


I guess fetch would be fine but does someone know how to use it in order to get this information?

Thanks for your help and see you soon

ncbi assembly reads • 54 views
ADD COMMENTlink modified 3 days ago • written 3 days ago by Chvatil50
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1745 users visited in the last hour