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The vignette seems to show only pre-configured sample data. I was hoping to get some instruction on importing my own data into the correct format. I'm using dada2 on qiime2 with the outputs being tabl…
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### Description of the bug
I’ve been testing ampliseq on some Element Biosciences data using standard Illumina settings and discovered an interesting issue where DADA2_ERR fails with error that looks…
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Hi,
I have data from 3 projects that I would like to compare. The methods were very similar but error rate liley vary, hence I would like to run them through lotus2 (particularly the error rate cal…
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Not much Nanopore data has been run using the pipeline, so it's hard to say how appropriate the default parameters are for these data vs Illumina. However, some suggestions based on the [`setDadaOpt`]…
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**Bug Description**
I have recently installed an Illumina iSeq-100 benchtop sequencer in my lab, and it was announced allready in 2018, that there will be a 2x 250 bp sequencing cartrige available so…
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col names should be capital to be the same than allele table
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I think we need to revisit our trimming parameters for ThruPlex NGS16S libraries (more an issue for the clampi pipeline than this one). If it's straightforward to do, it might be helpful to preserve t…
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Hello. Thanks for the helpful repo.
I am trying to understand some of the decisions you all made and wanted to get some clarification. I don't see a step where you pre-filter for ambiguous Ns befo…
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Hello, I'm currently working on some 16S sequences of whale microbiomes, they were sequenced with Illumina, V4 region, and I´ve been familiar only with V3V4, so I don't know if this quality and at the…
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Hi,
Im getting a DADA2 error message when running lotus2 (DADA2 + lambda) on some paired reads. Ive pasted some of the log output below. One thing I noticed was that pair2 is being trimmed at a ver…