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Locus breaker identified 41 loci for 40 proteins in which the boundaries' of the locus were the same.
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Hi i am trying to run snpgenie.pl with this command:
```
snpgenie.pl
--vcfformat=4
--minfreq=0.01
--outdir results/7_Snps/SnpGenie_Dyak_Tai18E2/NW_025048829.1
--snpreport=results/7_Snps/Dyak_…
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When I run the commad“/usr/local/bin/qemu-system-x86_64 -enable-kvm -cpu EPYC-v4 -machine q35 -smp 4,maxcpus=255 -m 2048M,slots=5,maxmem=10240M -no-reboot -bios /usr/local/share/qemu/OVMF_CODE.fd -dri…
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Hi,
I tried to install a SNP based kernel from this repo [https://github.com/coconut-svsm/linux](url) but only SEV and SEV-ES are enabled when I boot the kernel, previously I had a kernel with SNP…
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Compared to the other variant types, SNP/indel variant calling is extremely slow. Is there a reason for this bottleneck?
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Hi, i have the same problem.
I want to perform rare variants (MAF < 1%) analysis in Regenie, and have tried many times to follow your earlier advice to others, but still encounter the s…
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Hi Carl,
I have some datasets with > 5 Million SNPs (but < 500 samples and 1 phenotype). The run with single_snp takes more then 8 hours. Is there any way to speed up things?
Thanks
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Hello,
The analysis completes successfully, no errors, but the snp-dists folder contains only the .txt output
I've attached the snp matrix, heres my execution command, and some version info
`…
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**Describe the bug**
I have a cram file with amplicon sequencing reads, and a cram file with its corresponding "haplotypes". I work with a diploid, so that means I have at most two haplotypes p…
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Hi,
In the TrajGWAS documentation (https://openmendel.github.io/TrajGWAS.jl/dev/#GxE-or-other-interactions), the p-value file from jointly testing for G + G*E using the formula testformula=@formula…