dada2

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Is there any way to further speed up dada?

3

Hi and thanks for providing this amazing tool. I am currently running dada on a set of very deep sequenced samples. Around 3-6M 300bp NextSeq reads per sample remain after...

constructivedio

When processing full-length 16S data, the ASV table output by makeSequenceTable has an unusually low number of sequences in the sample

11

I processed Pacbio full-length 16S sequencing data using DaDa2 v1.30.0 Followed the tutorial all the way to the use dada command to process the de-duplicated data such as "dd

M-o-Y-u

Using screen background to remove noise with dada2 times error.

4

In the use of dada2 denoising of double end sequence, opened a screen background, there will be a mistake“An error was encountered while running DADA2 in R (return code 1),...

GoldLIU

Assigning sample names, time points, etc. in phyloseq step

3

I'm super new to R and analyzing some samples using dada2. I'm having trouble making plots and confused about the following code ``` samples.out

backwards-charm

Problem with taxa assignation

3

Hello Ben and team, I am having trouble with the taxa assignation using dada2 and the MIDORI reference database. I've sequenced a Metazoan COI library based on Leray et al....

martina-nasuelli

error laoding the dada2 library

5

i was running dada2 yesterday fine and not sure why I am encoutuering this erro 

marwa38

Cluster to OTU, not ASVs?

3

I am currently working with a data set where i want to cluster them into OTUs not ASVs in R. Is there a way to do this with DADA2? (I...

mya-darsan

Hi Ben and team, I am currently working on two sets of data that I have received elsewhere, both from the V4 region. For the first dataset, I have both...

MadsBjornsen

removePrimers misses valid primer matches in certain circumstances

5

Currently, using `removePrimers` with `orient=TRUE` appears to miss valid primer matches in certain circumstances. Specifically, it seems that in the current `removePrimers` logic, if there is a fwd-only primer match...

gmagoon

As described here: https://github.com/qiime2/q2-dada2/issues/165

benjjneb