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Hi,
I'm curious if it's possible to run npScarf with ONT reads aligned to a reference genome (consisting of unique contigs). I've aligned the long reads with `minimap2` to generate an indexed and s…
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I have used the following command for models
bonito download --models --list
I am having this error of usage: bonito [-h] [-v] {basecaller,evaluate,train,view,tune} ...
bonito: error: argument co…
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### Is your feature related to a problem?
Most people doing environmental samples do amplicon sequencing for mixed communities so it would be convenient to have a solution for handling this kind of d…
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### Ask away!
Hi Julien,
Ive attached a copy of the report. Again we are using the unzipped files from the fasta_pass folder, included all of our reference sequences in 1 file, and have tried low…
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Hi, I found such a problem in using medaka, do you have any idea of how to solve it? I will be very grateful if you could provide some help. Thank you in advance.
**Describe the bug**
I am using m…
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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…
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Hello,
I'm using racon to polish a close-to-complete genome assembly where most contigs have telomeres on the end. Racon is removing many of these telomeres. Is there any way I can avoid racon remo…
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Hi I have Nanopore PCR cDNA-seq data from PromethION (very deeply sequenced), that I would like to study allelic expression. I want to use these reads to do variant calling first (since the lack of ge…
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Please release dorado all context 5mC and 6mA model for r9.4.1 flow cell...🙏🏻🙏🏻🙏🏻
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# Issue Report
## Please describe the issue:
I have fast5-files and wanted to basecalling with Dorado. These files had previously been analyzed, I thing with Guppy and we wanted to reproduce the r…