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Can the NanoCaller be used to call reads from bacteria samples?
Also in your readme file there is an argument for selecting contig -chrom . If I want to call snps on the whole genome what argument…
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Hi, I started using DSRC because I needed to save some space and the tool has been great so far with my fastq Illumina data.
I also have some basecalled Nanopore data in fastq that I want to compre…
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Not much Nanopore data has been run using the pipeline, so it's hard to say how appropriate the default parameters are for these data vs Illumina. However, some suggestions based on the [`setDadaOpt`]…
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Hello,
I have a small suggestion, and I hope you will take it into account. Is there a way to retrieve the old version of NaPlot where Q5 and Q7 scores are also displayed? I understand that nanopor…
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Hi, I am trying to use Nanopore and some illumina reads from SRA database, I provided the fastq file from SRA its not working with the file, is there any way that can i use the fastq downloaded file f…
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Hello Team,
I simulated a shotgun metagenomic Nanopore dataset using NanoSim, containing:
65% bacterial sequences from 32 bacterial species
35% human sequences
For profiling, I created a Sylph…
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Dear,
First of all, sorry for asking about nanopore in the first issue when it is clearly indicated that this pipeline is ment for PacBio HiFi reads.
BUT, since it takes as input the assembly a…
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Hi, Thank you very much for devloping PECAT!
I am trying to assemble the Nanopore reads using PECAT, and got error during correction step as: `2024-11-20 03:36:52 [ERROR] Failed to convert line to ov…
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Hello sir,
Long time fan and user of Flye, Abruijn, etc.
I have three datasets:
- PacBio HiFi
- 90-95% accurate ultra-long ONT
- Hi-C
I know there are other assemblers that may out-perform…
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Hi,
I got the following error when I ran nanopolish eventalign. There isn't any other error message. I have run nanopolish eventalign with my other samples and it was fine.
**/var/spool/slurm/d…