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I am attempting to basecall using dorado, and I had a question regarding which kit I should provide as part of their `--kit-name` flag when using `dorado basecaller`.
In my library preparation, I …
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Dear nanopore devs,
I'm having issues getting mini_assemble to run on human (HG001/NA12978) data. I've successfully ran it on smaller assemblies before, but a ~30x human genome seems to be causing …
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We want to use lotus2 to analyze ITS sequences. A common issue is the read-through into the opposite primer as described in the dada2 toturial: https://benjjneb.github.io/dada2/ITS_workflow.html
Can …
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Create an option specific to light chains, this would call an LC_report.Rmd instead of a HC. Or the processing of LC is in the same file but there is a conditional argument somewhere to do that.
The…
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Hi all,
I'm relatively new to async Rust, but I noticed noodles has async readers and writers and figured I'd give them a shot for one of my projects. I'd like to asynchronously read compressed FAS…
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Hi @benjjneb,
I've been processing some old amplicon sequencing sets with dada2 recently with no trouble (I'm a big fan) . However the last set of paired reads seems to have a mix of primer orienta…
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### Describe the issue:
The result of `sum(some_array)` in NumPy 2.0 can differ from the 1.x series, and result in an overflow error. I suspect this is related to the type promotion changes with NE…
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Hello all.
We have extracted DNA from tomato leaves and roots. The DNA was amplified using the 16S primers 515f/806r and ITS primers gITS7/ITS4 (ITS2 region). We used PNA clamps with the 16S PCRs to …
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In the exercise, the code fails when executing:
```
primer_df, blat_df = AnoPrimer.designPrimers(
species='gambiae_sl',
assay_type='qPCR primers', # assay_type options are: 'qPCR pr…