savvy
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statgen
Interface to various variant calling formats.
As discussed in the video-call, we have been experimenting with different formats here at deCODE.  Unfortunately, I cannot share the data files, but one very visible observation that we...
Hello. I compressed chr1 from 1KGP3 (available here ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/release/20130502/) And checked the file with the following commands : ```bash sav export -O vcf chr1.sav | less ``` ```bash sav export...
So I am trying to build savvy via SAIGE, like this: When trying to install SAIGE either with export CFLAGS="-fPIC"; export CXXFLAGS="-fPIC"; cget install -f requirements.txt I get: Scanning dependencies...
I'm trying to catch up on what's been going on in the world of alternat vcf representations and I'm trying to understand what the benefits of savvy are vs bcf....
They fail the same way: Downloading https://github.com/statgen/savvy/archive/.tar.gz "Download failed with error 400" At the core, this command fails: cget install statgen/savvy@ Did you make some change which broke downstream installs...
I was looking to merge multiple `sav` files but noticed that `sav merge` isn't recognized as a command. However, after looking through the source code, I noticed that there is...
Hello, I am trying to install this package as part of Saige and I am getting an error like this. ```Ignore package xz Downloading https://github.com/statgen/savvy/archive/v2.1.0.tar.gz Unexpected error: [Errno socket error]...
I’m currently using the test VCF file you provided to create SAV files for chromosomes 18 and 20, and I encountered some issues when trying to concatenate the two SAV...
Since it is based on GNU libc, it has as already used on e.g. Linux.
