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We have included a mock community sample in our analysis.
This mock comprises 8 species.
Dada produces 273 ASVs for this sample.
When we cluster the ASV sequences with decipher they form 8 well def…
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Hello:
I'm using MiXCR to analyze B cell receptor sequences from bulk BCR-seq. I would like to know the isotype of identified clonotypes. Although, the output I get has isotype listed ("allCHitsWit…
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Hi,
I found DADA2 would produce an abnormally high number of Q1 (frequency of uniques, i.e. species that occur in only one sample) when pooling more than ~40 replicates.
Here are the details:
I …
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Hi @benjjneb,
I am using dada2 for ASV inference of an ITS amplicon dataset. Reads were generated during various sequencing events. The same primers were used to amplify the target region. Performi…
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Hi,
I am new to amplicon sequencing. I was wondering if you could provide me some suggestions regarding the DADA2 package.
I have MiSeq data that performed on hCoV-229E positive nasal positive s…
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Hi,
Recently we amplified nifH gene from a mixed bacterial sample and sequenced the resultant band. I used DADA2 workflow with default parameters and for taxonomic annotation used your database (as…
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We are testing the tool with the watch branch and are getting this hard to track error:
```
48 of 70 steps (69%) done
Select jobs to execute...
Failed to solve scheduling problem with ILP solver. …
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After it finishes reading this FASTQ files it doesn't progress past this point and doesn't give an error to console appearing as if it is still running.
Python version 3.9.0
Command ran:
pytho…
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1. What is the topic of your lesson or lesson proposal?
Analysis of data related to microbial communities from diverse environments. Specifically, this lesson will focus on analysis of "amplicon" d…
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Hi @FelixKrueger
I hope you are doing well. I am trying to map the 150 bp paired-end dataset to the amplicon (region of interest from the human genome). The mapping efficiency is below 1% for mos…