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https://github.com/theodorc/Atlas-CNV/blob/673a8e741c06e15a8612ba295bf7ff56e8c38774/convert_GATK_DoC.R#L39
Dear authors,
Could you tell the reason that you choose 100 as the average read…
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Hi, I would like to use lentiviral plasmid barcode libraries for lineage tracing based on an approach called STICR that was developed in a Nature paper last year. I have ordered two plasmid pools from…
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Hi,
I am trying to work with Porechop to demultiplex my data. The libraries are a bit complex, and I would really appreciate some help here.
We are doing microbiome work, and our hoping to do 16s…
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**Describe the bug**
Hi, I am using platon version 1.7 installed through mamba. As input I am using draft assmblies obtained from bacterial whole genome sequencing (enterobacteria, mainly klebsiella)…
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Hi @clintval,
do you have any plans of supporting the new SampleSheet v2 format?
Seems Illumina has released new tools and along a new version of the Samplesheet.
(https://blog.software.illumin…
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Hello,
trim_galore -o output --fastqc --paired $R1_file $R2_file
I have utilized trim-galore to trim illumina adapters on my PE sequencing reads.
When I tried to process the output fq files t…
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Hello,
Apologies for the broad title. I've come across this repo as I'm working on integrating read simulation into an internal testing library, at present via cython + wgsim. So I have a few quest…
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I want to ask if there is any possibility of using WHATSHAP for phasing my dataset which consist of Illumina whole genome sequencing at high coverage using also long reads from PacBio and Nanopore.
I…
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When I run the bacterial genreads wrapper script I get the following error message:
```
$python bacterial_genreads_wrapper.py -r Escherichia_coli.fa -i 40 -g 3 -k 0.25 -c 40
Using default sequencin…