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merged data input #1
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Hi @phnghia99 , Unfortunately the reads_merged.tsv isn't a solution to your issue. I wrote the pipeline to both assemble the reads and also split reads aligning to the nuclear and mito genomes. It wouldn't be too hard to modify the pipeline to accept merged reads. Lines 181 to 188 in af42920
And then update the inputs and Novoplasty config file in here: Lines 249 to 340 in af42920
RE "Another question, I also use NOVOplasty " If you're already using NOVOplasty, there's probably not much benefit to using mitoflow beyond the conveniences you get from nextflow job scheduling/parallelisation. Hope that clears things up :) Cheers, |
"NOVOplasty can't use merged reads" so mitoflow cannot use merged reads as input file, but NOVOplasty is update for combined reads recently. How can I overcome this issue (to input merged reads)?
I do see file "reads_merged.tsv" in example folder, if this is a solution, please inform me detail how to using it.
Another question, I also use NOVOplasty in my mitogenome assembly project, are there any difference assembly that I use mitoflow vs NOVOplasty?
Thanks :))
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