somalier
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brentp
fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"
Hi Brent, Thanks for Somalier, it's quite fast and straightforward to use! At the moment I am also trying to extract sites more tailored to my dataset with "find-sites". While...
Hi Brent, Been having trouble with using SOMALIER to apply to two different cohorts I want to confirm as a validation set for how SOMALIER performs to identify true duplicates...
Hi Brent, I was wondering if you are aware/have an easy way to run SOMALIER but only consider the relatedness when n (the shared number of sites) is higher than...
Hi Brent, Running into a weird issue here. I've tried to run SOMALIER to extract from a VCF using the following command but have received an error that suggests it...
Hi, Just a general question but have you ever looked at the performance of somalier to detect relatedness as a function of the Nsnps in the samples? I noticed on...
Hi Brent, I'm setting up a pipeline which includes somalier for QC and I'm experiencing a strange behaviour. Essentially, the pipeline is managed by Nextflow and I place the work...
Hi Thanks for the great tool. Is it possible to have this made available via Bioconda Thanks in advance
This is probably more of a question for other users rather than the developers. There are known polymorphic sites provided for human hg19/hg38 genome. Is there a version available for...
We deploy things with linux but most developers are using OSX. It would be very convenient to have a somalier binary compiled for OSX. I tried to do it myself...
Hi, If I am running somalier relate (after having previously extracted using somalier extract) on 20k samples and ~250 sites how long should I expect my command to take? I...