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Hello,
I have embryos from 129S1 (paternal) mice × B6D2F1/J (F1 of C57BL6NJ × DBA2J, maternal) mice. How can I make the genome preparation?
Is
SNPsplit_genome_preparation --vcf mgp.v5.merged.s…
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Hi, I used the -u option of the script to update the database, but when I used the updated database for MLST, I found that a large number of strains were assigned as 9999, which is obviously incorrect…
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For curation by @smvelasquez
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A recent GATK change replaces GT ./. due to DP=0 with 0/0 (with GQ=0).
A big argument erupted on the internet regarding the "breaking of the VCF spec"
I was wondering if the spec intends there …
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To demonstrate how well vcf-zarr works on real-world data we are going to demo on the 100,000 genomes VCFs (Genomics England project [RR1062](https://research.genomicsengland.co.uk/research-registry/b…
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Hi,
I got a segmentation fault with a chr3, but not any other chromosomes. Can developers please help with this.
The issue is very similar to the one described on the forum - https://gcta.freeforum…
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Hi! It's me again! I finally have the variant call against the genome of one of the parents. If I understood well I need to add a parameter --parent parent_genome.fasta, right? Then my question is, do…
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The VCI displays links to variants in the BRCA Exchange in the "basic information" > "other resources" section of the VCI. They are updating their system to key off CAR IDs. Please update the links …
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This is a fundamental problem to all calling modes I believe, but it's particularly bad with indels-cns as it's using edlib for computing an edit distance, which isn't an affine-weight gap cost and ha…
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### Description of feature
Not all callers report all variants in the same way. This needs some standardization.
Some links for inspiration:
- SV: https://support.illumina.com/content/dam/illum…