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At the moment we are finding that the slow stage of inference is `match_ancestors`, since it is only parallelized within an epoch (for ancestors at exactly the same age). This is because we need to ma…
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This is different from the one with the same combo 344-403 proposed in #57
Defining mutations:
XBB.1.9.2 >> T16548G > G21255T, S:A344T (G22592A) then S:R403K that occured sparsely in the tree:
h…
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To Whom It May Concern,
A colleague and I were looking at the predictions for NM_000059.3(BRCA2):c.8488_8496dup. We put in [13:32945090-C-CAGTGGATGG](https://spliceailookup.broadinstitute.org/#var…
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- [x] multiqc - https://anaconda.org/bioconda/multiqc - https://github.com/nf-core/modules/tree/master/modules/multiqc
- [x] wfmash - https://anaconda.org/bioconda/wfmash
- [x] seqwish - https://ana…
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I'm trying to run `vg deconstruct` to generate a VCF of the differences between hg38 chr1 and CHM13.
I ran
```
$ wget https://s3-us-west-2.amazonaws.com/human-pangenomics/pangenomes/freeze/free…
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貼吧活動:(請查閱 [SARS-CoV-2 Timeline by 2020.02.21](https://github.com/agorahub/_meta/blob/agoran/theagora/sari/Memorandum_2020-02-21_SARS-CoV-2-Timeline_Nathan.pdf?raw=true), by Nathan :cloud: )
- Colla…
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Hi Bao,
Thank you for sharing your nice codes!
I have a question about s1 population for Haplotype-aware Genetic Mapping.
Is there any reason why you chose S1 population? and can I use F1 populat…
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Hello,
I'm looking for more information about the FORMAT/GQ field. I understand this to be the post-imputation genotype quality. I pulled the FORMAT/GQ field out of an example variant with cycvf2 a…
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Hi!
I was wondering if mixOmics is useful to integrate different types of genomics data. In my case, I would like to integrate SNVs, CNAs and HLA haplotypes from the same cohort of samples. SNVs an…
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Hello,
**What I have done**
1) Used `ppgb` to build a graph genome with the `-v` parameter to directly use `vg deconstruct` in the pipeline, to generate a .vcf file
2) Used `vcfbub` to avoid…