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FUSION pipeline
jinghuazhao edited this page Jun 3, 2018
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This follows Mancuso N, et al. (2017) to use FUSION for gene expressioin analysis, whose associate software available from https://github.com/gusevlab/fusion_twas.
| Files | Description |
|---|---|
| GE.runlist | detailed list of jobs |
| ge-fusion.sh | driver |
| ge-fusion.qsub | qsub script |
| ge-fusion.subs | subroutine |
| GTEx.runlist | detailed list of jobs |
| gtex-fusion.sh | driver |
| gtex-fusion.qsub | sge routine |
| gtex-fusion.subs | sge subroutine |
| gtex-fusion.sge | non-array version |
| gtex-fusion.awk | utility |
| fusion.R | utility |
| fusion.sh | utility |
Note the ge- prefix indicates weights as in the original TWAS paper and the non-array version is meant to cover the array counterpart but hardly used.
Reference
Mancuso N, et al. (2017). Integrating gene expression with summary association statistics to identify susceptibility genes for 30 complex traits. American Journal of Human Genetics, 2017, 100, 473-487, http://www.cell.com/ajhg/fulltext/S0002-9297(17)30032-0. See also http://biorxiv.org/content/early/2016/09/01/072967 or http://dx.doi.org/10.1101/072967.