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Hi @fenderglass,
I've adopted a strategy using Illumina reads alongside ONT R10 data to construct and evaluate phased genome assemblies. After assembling with `canu`, I followed with `purged_dups`…
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I need to get familiar with Django and a first nice exercise to do this would be to port the current SeqTubeMap Node.js backend to Django.
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Gold standard benchmarking datasets such as the GIAB/NIST NA12878 and the Illumina Platinum Genomes truth sets provide both a VCF containing the variant records themselves, plus a BED file of "high co…
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Hi,
I'm a bit unsure about this, but I think the most recent version of your code has a memory leak.
I notice when I run the program (on ~11gb compressed input fasta) the RES mem keep increasi…
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Opening this issue to follow up on a conversation on supplementary alignments we just had with @nkkarpov @marcelm @snurk. This supersedes this historic issue, which actually has some useful thoughts a…
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Hi again Dr. Rhie,
I'm having a great time using merqury to asses quality and completeness of different versions of our assembly. It's an awesome tool and it is allowing us to make more informed dec…
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Hi Folks
I am having trouble getting bcbio to run on my torque cluster with variant2.
I updated to the latest development release, but it was giving the same problem before.
The cluster has 1…
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Is it possible to use this tool for protein sequences? Trying to compare two haplotypes predicted proteins. Plotting synteny blocks for these predicted protein sequences
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See #18 for description of wide vs long format.
Currently the assemble program outputs wide format VCF files i.e. each line contains a full haplotype block.
This is the most suitable output for the …
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@tprodanov, I want to reconstruct the haplotypes from MHC region. I have used the following commands.
````bash
jellyfish count --canonical --lower-count 2 --out-counter-len 2 --mer-len 25 --threads …
gsc74 updated
3 months ago