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I like using Freyja in my SARS-CoV-2 nextflow workflows. I am encountering issues, however, with how long Freyja takes to run.
Do you have tips or suggestions on how to reduce the time that Freyja…
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Hello,
After some days going through all the issues that seemed pertinent here, i think i need to ask more guidance about my issue.
In my track, i lose about 60% of my reads after merging, then…
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I'm trying to analyze a set of Paired FastQ files with dada2 in R. In my analysis I was doing before I realized that the raw reads still had their primers attached. So I went through the ITS workflow …
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Hello, I'm working with some illumina 16s V3V4 sequences, and I'm not sure how can I improve the non chimeric sequences. I have used the next for filter and trim
out
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Hello,
I'm currently trying to use dada2 to analyze some pacbio hifi amplicon data that is for near full rRNA operons (~ 4kb). I have a few questions about the optimal way to run dada2 for my data…
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Dear all,
I'm working on a metagenomics / metabarcoding project of soil samples. It involves Illumina MiSeq paired end sequences with 300 bp and 16S primers. I'm following DADA2 pipeline, however, …
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Hi! I am trying to use SIQ to analyse my Illumina data and majority of my reads appear in the category UnmergedCorrectPositionFR (for example in one of my runs, 81415 reads from a total of 123759). Th…
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I downloaded the entire database from the site: http://mitofish.aori.u-tokyo.ac.jp/species/detail/download/?filename=download%2F/complete_partial_mitogenomes.zip
Then I used this command
```
$ ma…
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This would be a database QC / internal consistency check
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**Describe the bug**
Annotations are missing from some plots. Most noticeably, this occurs with allele frequency quilts. Only the colors for each nucleotide are visible, but not the letters. Sometime…