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Hello there
Thanks a lot already for the work on this package!
I am trying to cluster 34,937,058 sequences of about 1000bp (18S amplicons) contained in a single fasta file, I'm using the following…
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Hi
Looks like a great tool I just wondered it will work with amplicon data. I seem to recall haplotype caller struggling with the lack of sequence diversity.
Thanks
Matt
mcgml updated
7 years ago
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See this as a workflow:
```
Building OTUs, would require that your reads align very nicely. That is pretty hard with Nanopore reads, and you end up with a lot of singletons. I have tried clusterin…
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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,
I'm using an amplicon kit which has tiled amplicons. These can create super amplicons, where the forward primer for amplicon 1 can form an 'super' amplicon with the reverse primer of amplicon2.
…
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I am doing 16S rna amplicon based ONT sequencing.
My target region is only of 1kb to 2kb in length.
Per sample reads is around 50K.
Will HEERO give me good error filtered estimates ?
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I'm trying to cluster with VSEARCH and assign taxonomy to a set of samples using partial LSU amplicons (in fasta format) PREVIOUSLY extracted from ONT long reads using ITSx. I used the following param…
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Hi, very nice tool and nice addition with the --info flag. I'd like to ask you if it would be possible to also output the primer name (e.g,. the aux info) to each classified read name instead of the i…
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The current technique that the assembled version is using to detect amplicons has two problems:
1. Some lengths are identified as amplicons when they shouldn't be.
2. Some lengths are not identifi…