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Hi,
I keep getting this error.
I still end up with files in the output, but it looks like the script is trying to generate a strange output directory path.
The output set for this run was 'ampl…
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I have all of the links in email. This is a great resource for testing new methods.
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Hi I have a simple question about using `dorado trim`
I did an amplicon sequencing run using the EXP-PBC096. The sequencing was run with live base calling using MinKNOW. However, the HTML report sh…
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Hi, @etal !
When I run CNVkit pipeline (v0.9.7) in wgs mode to make tumor analysis,
command: `$CNVKIT batch /data/D2288/D2288_t.aligned.bam --normal /data/D2288/D2288_n.aligned.bam --seq-method wg…
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Nick suggests a tiered approach. Ben will do a survey and see how many classifiers there are and whether it could be done.
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OK, So, We are using a pretrained model for metagenome simulations, We have a standard read count and 2 samples are getting generated, however when we are changing the no. of species that should be in…
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Hello,
I am trying to trim the primer off of 16S Miseq reads ( I am using just 4 samples, 8 fastq PE files as a toy dataset ) and I am having trouble understanding how the `removePrimers` function w…
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Dear developer:
![default](https://user-images.githubusercontent.com/42016367/49981636-c2e71680-ff93-11e8-86bc-e0413138064c.png)
I can't understand how to calculate the contig and bin's abundance? w…
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Hi!
I have demultiplexed sequences for eukaryotes (18S) and bacteria (16S) in the same fasta file. I would like to analyze only the sequences for bacteria. I was wondering if I should separate them b…
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Hi there,
Thanks for this great container, very helpful.
However, I have some troubles at species and pathovars level.
1) I need primers for a particular bacterial species. There are 14 genomes a…