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excuse me, when i excute this wdnn code, i find a problem that how could i get the files named as 'genotype_NNvalid_corr.tsv'?
THX!
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Discusses PCR, primers, restriction enzymes, electrophoresis, analyzing gels, and DNA sequencing.
# @grabear's Checklist
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Hey Brent,
I've been testing this out recently and I really love how fast it adds the annotations. I have a particular use case, and it may be something you don't want to support, but I thought I wou…
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The allel.stats.decomposition.pca function does not allow for missing data in the genotypes array. If I build the geno array using geno = genotypes.to_n_alt() it will work, but with geno = genotypes.t…
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I was wondering whether it is likely that you will ever introduce a feature allowing data to be inputted in genotype likelihood format, in addition to hard genotype calls? This would be very useful in…
sahwa updated
5 years ago
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Is there a way to generate a joint-genotyped vcf with pangenie? If I understand the software correctly, only the variants in the pangenome reference are called across all the genotyped samples while…
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BAMfiles probably need to be QNAME sorted (rather than coordinate sorted) when splitting them
riasc updated
4 months ago
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Consider using the individual, sample, metadata, and variant core APIs as templates for a genotype + phenotype query language.
For example, we can ask for information about alleles in a specific coho…
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Hi,
When I used `akt pca`, I got such message
*******************
MAF lower bound: 0
Thin: 1
Number principle components: 20
Reading data...
984 samples
Bad genotypes at 1:758351
**********…
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Hi,
Thank you very much for developing the suite of SV calling tools.
I am using INSurVeyor and SurVIndel2 to call SVs for individual samples, and then performing clustering across individual calls…