...what to do?
Hi, I've been working a little with a large genome assembly (250Mb). I have Illumina and PacBio reads using diffrent approaches. At the end, used SPAdes assembly with Illumina data and PBJelly for filling gaps with PacBio subreads. Decent assembly at the end.
But when I compare the assembly with some regions I have already sequenced, looks like the assembly can still be improved. Situations like this are found:
where there are overlapping regions of 70-75 nt with 100% identity.
Is there any post assembly processor which would be able to deal with situations like this?
Thanks
Hi, I've been working a little with a large genome assembly (250Mb). I have Illumina and PacBio reads using diffrent approaches. At the end, used SPAdes assembly with Illumina data and PBJelly for filling gaps with PacBio subreads. Decent assembly at the end.
But when I compare the assembly with some regions I have already sequenced, looks like the assembly can still be improved. Situations like this are found:
Code:
reference: **************************************************************************************** contigs: ------------------------------- ----------------------------------- -----------------------------------------------
Is there any post assembly processor which would be able to deal with situations like this?
Thanks
Comment