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Hello, we are running dorado on 2 samples. One native DNA vs the PCR amplified one that "in theory" should not hold the methylation.
Why do we get a methylation signal in the PCR sample?
The methyl…
BioRB updated
3 months ago
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I am following the pipeline posted on "https://github.com/ErnakovichLab/dada2_ernakovichlab".
I am working with NovaSeq 2*250bp data.
Primer amplicon length: 347bp
Issue: rbind results (see bel…
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Hi @benjjneb, hi everyone,
I am currently looking for the best filtering parameters for my data and have been running some tests on a few samples. We have sent samples for sequencing in several ba…
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## Template Fixes:
## Specification Changes:
| Field | Change |
| --- | --- |
| `sequencing_assay_type` | New field |
| `host (common name)` | New picklist IDs |
| `host (scientific name)`…
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Hi all,
I am using DADA2 to analyze 13 biofilms samples sequenced for the 16S rRNA V4 region.
The samples were sequenced in two different periods. In detail 12 samples are sequenced together and 1…
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Hello,
I downloaded the docker image as per documentation:
```
singularity pull docker://quay.io/qiime2/amplicon:2023.9
```
I then run the image:
```
singularity run docker://quay.io/qi…
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Hello,
I was trying to install RESCRIPt in the latest q2 release (q2-amplicon-2023.9), assuming that
`-c https://packages.qiime2.org/qiime2/2023.5/tested/` and
`'q2-types-genomics>2023.2'`
of t…
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Here are the first round reviews from the Diagnostics manuscript as an itemized list and the full text:
- [ ] Reviewer 1.1 --> #1173
- [ ] Reviewer 1.2 (this is a long one, we could split it up)
…
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I have five plant nrITS amplicon sequence files (~650bp sequence length) from five plant leaves (PacBio 0.999 CCS reads) with 1189 reads (combined) and 95% of them are singletons.
The sequence qual…
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Hi Ben,
I am big fan of DADA2 for analysing 16S data. I recently worked with AmpliSeq data generated on Illumina with paired-end. In nutshell, multiple targets (AMR genes) (>800) were amplified and…