stephenslab / causal-TWAS

website for causal TWAS project

causal-TWAS analysis

New method to identify causal genes in TWAS studies.

Run a workflow

Dry run first:

snakemake -s ~/causalTWAS/causal-TWAS/code/workflow/Snakefile-test -n --dag | dot -Tsvg > dag.svg

Run on node:

snakemake -s ~/causalTWAS/causal-TWAS/code/workflow/Snakefile-test -j 1

Run on cluster:

snakemake -s ~/causalTWAS/causal-TWAS/code/workflow/Snakefile-test -j 999 --cluster-config cluster-broadwl.json --cluster "sbatch -n {cluster.n}  -t {cluster.time} --mem {cluster.mem} --job-name {cluster.name} --output {cluster.out} --error {cluster.err} --partition {cluster.partition}"