dada2
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benjjneb
Accurate sample inference from amplicon data with single nucleotide resolution
Hi, I have Nanopore sequencing data for the 16s gene of microbioal communities. Can dada2 be used for this type of sequencing data, and if not, is it in development?...
Hello! I am getting this error when running dada. I've already tried > errF dadaFs
Hello, I am using the DADA2 pipeline tutorial in order to process some samples. I would like to know wich SILVA version is used in this pipeline, in the line...
Hello, I'm having issues with the filterAndTrim step. I've successfully done this step on two pilot projects without issue, but am struggling with some new sequence data even though the...
Hello! I tried now several times running "learnErrors" of DADA2 in R. Loading the package worked fine and every step described until that. It runs about an hour, gives as...
Dear, When I use filterAndTrim to clean the gzip fastq file, I always get the error "Error in add(bin) : record does not start with '@'". I guess the error...
Hi Ben! I am trying to assign sequences to species using a .fasta file created for a custom library. However, whenever I use my code, I get an error message....
Hello. I am comparing 16S rRNA primers to understand their impact on the community composition of my samples. The two primers are 515F_806R and 341F_805R. Amplicon libraries were prepared and...
Hi - I'm sequencing cyanobacteria with a 'cyano-specific' primer set. As expected, a large fraction of the 629 ASVs were assigned as Chloroplast (n = 178) by assignTaxonomy using the...
Hi @benjjneb I'm Hanbeen Kim. I have raw data set sequenced by PacBio technology. I have two significant issues when processing the denoising command using dada2. 1) First, when I'm...
