dada2

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Hello, I'm working with some publicly available mixed-orientation reads, but I'm having trouble making it through the processing steps without losing >75% of the reads from start to finish. This...

sasugden

Half of the bar chart has no data

3

Hi, I used tutorial for my paired dataset until the last step. In last step, I got bar data for only 5 data in my dataset that contain 10 data....

CatCatcher1

Hi! I'm trying to run the next command and I get an error ``` fit

MiriamFuentesV

Hi, We have difficulties to pinpoint the reason why we loose ~60% of our sequences after the dada2 pipeline. We ran the pipeline multiple times with a range of parameters...

dsamoht

filterAndTrim returns error " 'names' attribute [81] must be the same length as the vector [33]" although fnFs, filtFs, fnRs and filtRs have the same length

1

I'm running DADA2 version 1.20.0. I'm encountering the following error upon reaching filterAndTrim() ``` Error in names(answer) mcmapply In addition: Warning message: In mclapply(seq_len(n), do_one, mc.preschedule = mc.preschedule, : scheduled...

jorgeamaya

too long in removing chimeras

1

I've running the dada2 protocol for 20 samples, and I always have problem with the chimera removal. I have access to a cluster, so I ask for a lot of...

Karelynz

Just want to know if these plots are fine or if is there any issue that need to be fixed. [errorplot.pdf](https://github.com/user-attachments/files/16073363/errorplot.pdf) Here the quality plots as well [qualplot.pdf](https://github.com/user-attachments/files/16073378/qualplot.pdf) My code...

biadelbianco

I am facing a problem with addSpecies and assignSpecies both commands in DADA2. I didn't get any species-level information for our data. I followed your standard pipeline (https://benjjneb.github.io/dada2/tutorial_1_8.html). I used...

abhisek061github

Primers, cutadapt output and chimera

1

Hi @benjjneb, I have several questions, hopefully not all stupid ones. I'm working with sequences with both a classical set of primers... ``` FWD

luigallucci

segfaults due to zero-length reads in input

11

Hi, I regularly use dada2 to denoise on my illumina 16S datasets. It usually works well, but occasionally, I get segfaults when using `learnErrors()`. The example below was produced with...

Puumanamana