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Hi,
Thanks for a great tool. I am playing around with genotyping amplicon data from Nanopore sequencing. I can get Straglr to call certain STRs but not others, and I wonder if I need to do somethin…
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Hi,
I have analysed ITS1 amplicons from fungal samples (leaf endophytes) using kraken2 and the PlusPFP-16 indices provided by Ben Langmead.
These amplicons were trimmed for PCR primer sequences, b…
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Hey, great tool!
I wonder if it is also possible to use more than one primer pair? The example primer FASTA and the description sound like one can only use one primer pair. But what if I sequenced …
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current fix has a more stringent filtering of non overlapping reads in dada2. Some of those reads can be stitched back and I think we can do a better job at merging those, but will require some thinki…
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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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Hi,
Great tool for implementing L. pneumophila SBT! Thanks.
I'm trying to call SBT using nanopore sequenced multiplex PCR amplicons. However, I get "no product" results for some of the alleles. S…
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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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Out of curiousity, the description says:
> Flash2 has some improvements from flash_1 including new logic from innie and outie overlaps as well as some initial steps for flash for amplicons
I saw …
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Hello! Thanks for putting together CliqueSNV - the ability to leverage long reads should be really powerful across different fields I think. I was curious if it would be possible to use long reads tha…
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Dear authors,
Thank you for your work, I was testing your software on several datasets and I obtained this error message:
```
[raven::] loaded 9004 sequences 0.110631s
[raven::Graph::Construct] …