GitHub - MRCIEU/mendelvar_standalone: Standalone version of the MendelVar pipeline

Initial set-up for standalone MendelVar usage.

mendelvar_intial_setup.md

Manual changes required (see the "Populate OMIM data" section in the mendelvar_intial_setup.md file)

Default location to clone the repository with MendelVar scripts into: $HOME/bin/mendelvar_standalone

Make sure that two default locations below exist:

Default location for MendelVar data: $HOME/MendelVar

Default location for MendelVar results: $HOME/MendelVar_out

sh ./user_input/2_mendelvar_regular_update.sh

Manual changes required (see lines 13, 30, 33 in the script)

sh ./user_input/1_run_user_input.sh

Manual changes required (see line 15 in the script)

Name		Name	Last commit message	Last commit date
Latest commit History 18 Commits
clinvar		clinvar
decipher		decipher
disease		disease
genome		genome
genomics_england		genomics_england
omim		omim
ontology		ontology
orphanet		orphanet
ref_panel		ref_panel
user_input		user_input
LICENSE		LICENSE
MendelVar_dependencies.R		MendelVar_dependencies.R
README.md		README.md
environment.yml		environment.yml
mendelvar_initial_setup.md		mendelvar_initial_setup.md