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Hi, I am trying out Ampligone. It works fast but I got a few questions. I am working with Nanopore reads of 16s rRNA amplicons.
1) If you provide the tool with a single reference, than it determine…
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Hi there,
I have two questions:
1. You have mentioned that "ONTbarcoder has been optimized for protein coding gene like COI. While **there are ways** to obtain consensus for length variable non …
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Hi,
In version 0.15.0 seqkit amplicon only keeps one amplicon (the largest) per primer pair. I don't always care about the largest amplicon.
Would it be possible to implement the feature of kee…
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editor preferred term: Roche 454 GS FLX+
alternative terms: 454 GS FLX+
textual definition: is a DNA sequencer which is manufactured by 454 Life Science Corporation and enables pyrosequencing to be …
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# Possible reasons for duplex reads' quality are low
Hello, thank you for increasing the read quality! We always observe higher read mean quality on duplex than simplex reads, especially simplex pa…
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The workflow could be run on all amplicons only (and not specific target SNPs aswell). If we can reduce the number of inputs for some users that's a bonus.
Things like allele frequencies and cover…
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Hi,
I have a particular case and wanted to know If I can address this with `minimap2`. I have some Illumina reads that come from several amplicons and I also have a list of primers that generated …
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JSON should be identical to that from 0.3.7 but
a) with line breaks, eg indent =2,
b) with an additional summary block, containing:
“Summary”: {
“command”: “viridian run_one_sample fq1 fq2”…
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Hello,
We are using CRISPResso2 pooled to map reads to multiple amplicons and it's working very nicely as long as the guide matches the amplicon perfectly. However, we also have cases where a guid…
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In the AmpliconClassifier documentation is detailed, that only cyclic amplicons can be classified into BFB or ecDNAs.
However, in my analysis, I noticed that some were classified as Complex, but the…