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BioInf-Wuerzburg / proovread

PacBio hybrid error correction through iterative short read consensus
MIT License
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Oxford Nanopore data #149

Closed akesarwani closed 5 years ago

akesarwani commented 5 years ago

can proovread be used for ONT sequence. I am not sure if any parameter tuning might be required.

thackl commented 5 years ago

No, not very well without parameter tuning. And we tried a bit in the past but at least with shorter Illumina data <150bp, we didn't have to get too good results.

akesarwani commented 5 years ago

proovread was used to correct error in oxford nanopore direct RNA sequencing data in a recent paper (https://www.biorxiv.org/content/10.1101/706002v1). Not sure, how proovread can be used.

thackl commented 5 years ago

You can certainly use it. And it will correct your data as good as it can. But it likely won't be as good as it would be with pacbio data, or as other dedicated tools might be with nanopore.