debug ld clump #333
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: Linux | |
| on: | |
| push: | |
| branches: [ main, dev, ld ] | |
| pull_request: | |
| branches: [ main ] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: install dependency | |
| run: | | |
| sudo apt update | |
| sudo apt-get update | |
| sudo apt-get -y install libzstd-dev | |
| - name: make | |
| run: make -j4 | |
| - name: download example data | |
| run: make data | |
| - name: test LD module | |
| run: | | |
| ./PCAone -b example/plink -k 3 --ld -o adj | |
| ./PCAone -B adj.residuals --ld-bim adj.kept.bim --clump example/plink.pheno0.assoc --clump-p1 0.01 --clump-p2 0.05 --clump-r2 0.1 --clump-bp 10000000 -m 1 -o adj_clump_m1 | |
| ./PCAone -B adj.residuals --ld-bim adj.kept.bim --clump example/plink.pheno0.assoc --clump-p1 0.01 --clump-p2 0.05 --clump-r2 0.1 --clump-bp 10000000 -m 0 -o adj_clump_m0 | |
| # make ld_matrix | |
| # make ld_clump | |
| # make ld_tests |