GTEx v8 pipeline

Extract sample information
Take RSEM values and break down them into convert them to Gaussian values. We used RSEM quantified expected count data. Previous benchmarks show stable performance of RSEM.
Perform confounder correction with half-sibling regression.

Name		Name	Last commit message	Last commit date
Latest commit History 20 Commits
data		data
docs		docs
stat		stat
twas		twas
twas_data		twas_data
README.md		README.md
STEP1.Makefile		STEP1.Makefile
STEP2.Makefile		STEP2.Makefile
STEP3.Makefile		STEP3.Makefile
STEP4.Makefile		STEP4.Makefile
STEP5.Makefile		STEP5.Makefile
STEP6.Makefile		STEP6.Makefile
Util.FQTL.R		Util.FQTL.R
Util.R		Util.R
Util.TWAS.R		Util.TWAS.R
make.cis-correction.R		make.cis-correction.R
make.coding.genes.R		make.coding.genes.R
make.combine_fqtl.R		make.combine_fqtl.R
make.combine_tissue.R		make.combine_tissue.R
make.combine_twas-viz.R		make.combine_twas-viz.R
make.combine_twas.R		make.combine_twas.R
make.distribute.gwas.awk		make.distribute.gwas.awk
make.distribute.gwas.sh		make.distribute.gwas.sh
make.filter.tis.awk		make.filter.tis.awk
make.fqtl.R		make.fqtl.R
make.job.segments.R		make.job.segments.R
make.preprocess.R		make.preprocess.R
make.samples.cov.R		make.samples.cov.R
make.summary.data.R		make.summary.data.R
make.tis.idx.awk		make.tis.idx.awk
make.twas-cluster.R		make.twas-cluster.R
make.twas-viz.R		make.twas-viz.R
make.twas.R		make.twas.R
run.sh		run.sh
run_jobs.sh		run_jobs.sh
util.remove_NA_fqtl.R		util.remove_NA_fqtl.R
util_subset_cols.awk		util_subset_cols.awk
util_subset_rows.awk		util_subset_rows.awk
util_transpose.awk		util_transpose.awk

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