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Marleen1 / OGRE

Overlap graph-based read assembly
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Usage of Nanopore reads #1

Open bistace opened 4 years ago

bistace commented 4 years ago

Hi,

we have sequenced marine samples using the Nanopore sequencers and I am currently testing methods to assemble the resulting sequences. I just stumbled upon your article and would be very interested in testing your tool.

I have access to a 64-cores server with 1.5Tb of RAM and was wondering if you could give me your advice concerning the limits, numsplitlines and lines_per_file parameters (we have generated approximately 150Gb of Nanopore reads).

anuradhawick commented 3 years ago

@bistace; were you able to run OGRE pipeline on ONT datasets?

Could you please let us know suitable parameters if possible?

I am very much interested in Reads binning in metagenomics. We are keen to run OGRE and compare with MetaBCC-LR and LRBinner.