-
Hi!
I'm working on 16S sequences from Illumina 2x300, with targeting regions V3-V4 (341F-785R)...
Forward:
Reverse:
These are the quality profile after cutadapt.
We were trying to targ…
-
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…
-
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 …
-
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…
-
Currently well_id_96 information is not being exported into NovaSeq samplesheets and therefore not being carried over into the preparation file for the sequencing run. The steps to do this are as foll…
-
Hello!
I am trying to use AmpliSIM as following but it gives an error "Error generating the amplicons." without any explanation of the issue.
`./amplisim ~/ref_seqs/NC_045512_Hu-1.fasta ~/ref_se…
-
### Ask away!
Can you clarify if from the output of the pipeline what is in this sorted.aligned.bam file.
I am looking for an output bam file of the reads that aligned to the amplicon of interes…
-
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, …
-
The accessor queries the ENA REST API and stores each sample metadata (ie: URLs to FASTQs, country, collection date, etc.). It also, optionally, downloads the FASTQ files and stores them in the file s…
-
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