diff --git a/docs/Software_installation_ultra2.md b/docs/Software_installation_ultra2.md index b5eb84a04ad7581371ae8b1aa3b3bb652a83bf90..38c04a1961fe97f520f8b8c46f33f95986bc5f89 100644 --- a/docs/Software_installation_ultra2.md +++ b/docs/Software_installation_ultra2.md @@ -48,6 +48,8 @@ DATE=`date +%Y%m%d%H%M` /home/u035/project/software/bcbio/tools/bin/bcbio_nextgen.py upgrade -u skip --datatarget vep &> bcbio_install_logs/bcbio_install_datatarget_vep_${DATE}.log ``` +Q: do we even need gnomAD annotations on these? Should I be skipping VEP altogether for the alignment & variant calling pipeline? + We already had gnomAD 3.0 compiled and downloaded on the ultra2 bcbio installation, so this gets copied to `/home/u035/u035/shared/software/bcbio/genomes/Hsapiens/hg38/variation`. ```