Fixed bug in ${fluxDir}.
Merge pull request #20 from PatrickDeelen/master

ShapeIt2 pipeline
Small bugfixes (in- and outputs) in pipelines.
Several bug fixes
First version of lift over pipeline.
Small bugfixes in Liftover pipeline.
Merge pull request #21 from freerkvandijk/master

Production ready shapeit2 and liftover pipeline
Small bugfix and modification to worksheet, this to make user example more clear.
Merge pull request #22 from freerkvandijk/master

Small updates on impute2 pipeline
Added minimac_study_concordance.ftl
Removed accidentaly inserted file
added workflowMinimacStage5 for concordance
change schedulare from GRID to CLUSTER
change schedulare from CLUSTER to PBS
change root var
check for output of python script
corrected mv of plink output
Merge pull request #23 from PatrickDeelen/master

Fixed all outputs exists in impute2 pipeline
Merge pull request #24 from kantale/master

Added concordance protocol for Imputation_minimac
Added gwas collection of protocols