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Hello Benjamin,
I've merged sequence tables of several `dada()` runs (in summary around 680 samples) and I am running the `collapseNoMismatch()` right now and it takes quite a while (it's running f…
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Hello there,
I am currently working to integrate CRABS into a pipeline for evaluating primers for metabarcoding initiatives. We are particularly interested in the Pairwise Global Alignment feature …
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Hello,
I'm testing SWARM for an eDNA metabarcoding pipeline to see how it performs compared to a "normal" OTU approach with `vsearch`.
I've tried implementing SWARM as per [Fred's MB pipline](h…
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in the settings file, there is no explanation on what is required for the following:
##MARKERS TO ANALYSE
Targets=""
#File containing marker primer sequences
PrimerFile=
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From attempting to recreate the figure from the underlying data (and my own analysis of the FASTQ files), I think there is a misplaced False Negative annotation on Figure 3. I do not believe this chan…
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Hi,
I have the following COI sequence:
>ASV2
TCTAAGTCATATTACGAGCCACTCTGGTGGTGCAGTTGATTTAGCTATTTTCAGTTTACATTTATCTGGAGCGAGCAGTATTTTAGGGGCGATTAACTTTATTACCACTATCTTTAACATGCGTGGGCCTGGTCTGGGCTTCCATCGC…
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**Dataset title**
Genome Taxonomy Database (GTDB)
**Dataset contact & access**
https://gtdb.ecogenomic.org/
https://data.ace.uq.edu.au/public/gtdb/data/releases/latest/ar122_taxonomy.tsv
https:…
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Hi,
KTU:klustering is using a tremendous amount of memory in my machine. Even dedicating around 30 GB of swap memory and 8Gb of RAM would not be enough for around 30k input sequences (20Mb of a plain…
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I have a collaborator who wants me to run eDNAFlow on their data to test it against the pipeline they always used. However, the fastqs they received from the folks that did their sequencing (a while b…
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My Database did not have Kingdom data and the pipeline failed for it.
Workflow execution completed unsuccessfully!
The exit status of the task that caused the workflow execution to fail was: 1.
…