mrcepid-rap's repositories
Language:PythonMIT000
mrcepid-runassociationtesting
Interface for Association Tests on the UKB Research Access Platform
general_utilities
General Utilities for the RAP
Language:PythonMIT000
mrcepid-filterbcf
Filter VCF/BCF according to MRCEpid parameters
Language:PythonMIT000
Language:PythonMIT000
dockerimages
Docker images to provide resourses to RAP applets
phewas
PheWAS module for mrcepid-runassociationtesting
Language:PythonMIT000
mrcepid-testing
Testing utilities for the MRCEpid UKB RAP Pipeline
Language:PythonMIT000
extract
Extract module for mrcepid-runassociationtesting
Language:PythonMIT000
QC_workflow_WGS
Quality control of UKBB Whole Genome Sequencing
Language:Python000
QC_workflow
Example command lines for QC and burden testing
mrcepid-makebgen
RAP platform turns a bcf into a bgen
Language:PythonMIT000
mrcepid-test_loader
A small applet for module import testing
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hg.r.utils
R utilities for analysing associationtesting results
Language:R000
mrcepid-buildgrms
Do genotype QC and build GRMs
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mrcepid-annotatecadd
Annotate VCFs with CADD
Language:PythonMIT000
mrcepid-extractvariants
Extract individual level data from the RAP
Language:Python000
mrcepid-mergecollapsevariants
Merge variants from mrcepid-collapsevariants
Language:Python000
mrcepid-collecthsmetrics
Count mean coverage in cram files
Language:Python000
Language:Jupyter Notebook000