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Hi there,
So I just tried the r0.6 on an 80x aligned ONT dataset (Guppy 5.x.x SUP model). It's been running for 2 days and 16 hours now with 24 threads and 128 GB of RAM. From the console output, I…
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Hello,
I'd like to ask if there are any tips to reduce memory consumption of the fmlrc2 process? I'm running it on human data, my `FASTA` is 111Gb and the index generated with the short reads is 69…
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Hi,
Thank you very much for the detailed tutorial on how to train Pepper-MARGIN-DeepVariant. In general, I thought everything was clear and well-written. I am finished with training PEPPER-SNP and …
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Hi,
I am trying GraphUnzip on a haplotype-resolved assembly of a human genome and I could use some advice. The assembly is for a small region with many (large) segmental duplications and a really l…
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Hi hi,
So I am in the midst of [training Pepper SNP](https://github.com/kishwarshafin/pepper/blob/r0.7/docs/training_pepper_margin_deepvariant/how_to_train_pepper_snp.md) on my HG002 corrected with…
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I am attempting to run correction on human Genome, on the university HPC, however our run times are limited to maximum 3 days. Is there a way to configure to run in batches? Our HPC supports checkpoin…
jo-mc updated
3 years ago
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Hi,
I would like to know how to parameterize Abyss to use a reference genome. I am having some trouble with MaSurca, so I wanted to try Abyss to see if the Busco Score is higher. I would like to sa…
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**Describe the bug**
This is not good:
```
2.6.5 :015 > TaxonName.where( "taxon_id is null" ).count
=> 3104
```
It's causing a crash on `TaxonNamesController#edit` when the name has a synonym …
kueda updated
3 years ago
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Hello Ratatosk Team,
I have short reads in 2 file 01_R1.fastq and 01_R2.fastq for example. How should I offer them to -s ? they have the same fastq sequence name (fastq header) for each sequence ex…
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Hi
I was wondering if we are able to run ref guided correction locally. I do have access to required CPU #'s and RAM on 1 single machine..
Thanks a ton
Cheers