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| Name | Description | Size | Format | URL |
| --- | --- | --- | --- | --- |
| World Bank - Light Every Night | Light Every Night - World Bank Nightime Light Data – provides open access to all night…
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The current assembly tool is not aware of population structure and uses a prior that all individuals are unrelated and out-bred.
These priors will be less accurate with more advanced material where t…
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Hi,Glennis Logsdon
In your article ,you find the misassembly by using opticle data to call SV,but in your second version,you used the haplotype-aware parameters de nove assemly the map ,This map wa…
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Hello,
We have a collaborator who is working on gene annotation and loss and found a number of genes which were falsely annotated as lost or mutated as the output of hifiasm. Mapping the ccs reads …
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Hi there,
I wonder if this tool can be used for polyploid assemblies.
Thank you.
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Hi
I'm currently constructing a pangenome from 20 varieties of the same species. The pan-transcriptome is also being generated, with a transcriptome for each individual across different tissues. Re…
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Hello, I ran the following `medaka_haploid_variant` commands using the 3 different mode arguments to look for variants in SARS2 genome using nanopore reads that were basedcalled with Guppy 4.0.14.
…
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Hello,
I would like to extract haplotype in each of my samples. Can I just mine the SNVs.tsv file and extract 2 haplotype, the one constituted with con_base and var_base? How do you advise to proceed…
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Does HapCUT2 phase/haplotype _de novo_ SNVs/INDELs for the proband in a trio? My understanding is that it does not (from skimming manuscript/repo), just trying to make certain. Thanks!
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I have noticed that `bcftools csq` will not assign any `BCSQ` field for intergenic variants.
When used with `bcftools +split-vep` this causes all intergenic sites to be dropped due to the following…