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ONT Pipeline #71

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rdfinn opened this issue Jun 7, 2017 · 1 comment

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rdfinn commented Jun 7, 2017 •

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We need to start thinking about how we should run ONT data

QC using poretools
Functional assignments using nhmmer and pfam
The functional assignments looks really good, need a Pfam2GO, or Pfam -> InterPro2GO
Kmer based taxonomy profiling
Standard SSU/LSU approach, may need to take top hit? Does mapseq do any thing different.

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rdfinn commented Jun 7, 2017

poretools fasta <path to directory containing the ‘pass’ fast5 files> > <name.fasta>

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