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Thank you for really amazing tool.
I have faced with some errors when I tried to use Ratatosk. Generally it was a time or memory limit errors. Execution have been stopped on the indexing stage 1, a…
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Hello,
Great tool! Would it be possible to have a Bioconda recipe for Ratatosk? This way it will also trigger the creation of Biocontainers (docker and singularity) that can be integrated in assemb…
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Hello, I am thinking to try Ratatosk to correct Nanopore reads using PacBio HiFi reads. Is there any specific setting I should use for that, or can I just input the PacBio HiFi reads as if they were I…
jflot updated
2 years ago
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Hi, I understand that if I am interested in SNPs, I should use both short and long reads for the same individual. But could I use short reads from another individual for purpose of de novo genome asse…
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Hi! Is there a chance to make it work using Nanopore reads with UMIs?
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Hi,
I am hoping to use the reference-guided mode of Ratatosk to correct ONT reads. I tried using the new version, but there seem to be some errors.
In line [78](https://github.com/DecodeGenetics/R…
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Thanks for a great tool! I have two questions to try to optimize my use of Ratatosk.
1. For the insert size, how sensitive is the error-correction process to deviation from the default 500-bp insert…
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Since the second correction pass takes significantly more time to finish, I was wondering if this can be split into multiple smaller jobs. It would be far less efficient, but assuming the `dbg.build`,…
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Hello, I am using Ratatosk on quite a large dataset. I used simply "correct" without the two-part command system. However, I might run out of resources and I was wondering if it would be possible to r…
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I have 43X coverage of porechop trimmed and ratatosk corrected reads (>1K length, stats below) but canu says only 3.* x coverage. Could you please help?
```
stats for nano1k_ratatosk.fq.fastq
sum…