Files in jdreyf/PANTS
Pathway analysis via network smoothing
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
PANTS.Rproj
R/Gmat2gmt.R
R/SMPDB2Gmat.R
R/diag_kernel.R
R/edgeList2graph.R
R/ezpermutations.R
R/gmt2Gmat.R
R/graph2kernel.R
R/mat_pow.R
R/match_mats.R
R/neighbor_nms.R
R/opt_binom_n.R
R/p_ecdf.R
R/pants.R
R/plot_pwy.R
R/sapply_by_ncores.R
R/score_features.R
R/select_ntop_per_pwy.R
R/sif2edgelist.R
R/sim_pants.R
R/sim_pants_mediation.R
R/subset_gmat.R
R/write_pants_xl.R
README.md
codecov.yml
man/Gmat2gmt.Rd
man/SMPDB2Gmat.Rd
man/diag_kernel.Rd
man/edgelist2graph.Rd
man/ezpermutations.Rd
man/gmt2Gmat.Rd
man/graph2kernel.Rd
man/mat_pow.Rd
man/match_mats.Rd
man/neighbor_nms.Rd
man/opt_binom_n.Rd
man/p_ecdf.Rd
man/pants.Rd
man/plot_pwy.Rd
man/sapply_by_ncores.Rd
man/score_features.Rd
man/select_ntop_per_pwy.Rd
man/sif2edgelist.Rd
man/sim_pants.Rd
man/sim_pants_mediation.Rd
man/subset_gmat.Rd
man/write_pants_xl.Rd
tests/figs/deps.txt
tests/figs/plot-pwy/pwy1-1x.svg
tests/figs/plot-pwy/pwy1-ann.svg
tests/figs/plot-pwy/pwy1-na.svg
tests/figs/plot-pwy/pwy1-ntop2.svg
tests/figs/plot-pwy/pwy1-seed1.svg
tests/testthat.R
tests/testthat/helper-pants.R
tests/testthat/teardown-pants.R
tests/testthat/test-Gmat2gmt.R
tests/testthat/test-SMPDB2Gmat.R
tests/testthat/test-diag_kernel.R
tests/testthat/test-ezpermutations.R
tests/testthat/test-gmt2Gmat.R
tests/testthat/test-graph2kernel.R
tests/testthat/test-mat_pow.R
tests/testthat/test-match_mats.R
tests/testthat/test-p_ecdf.R
tests/testthat/test-pants-cor.R
tests/testthat/test-pants-mediation.R
tests/testthat/test-pants.R
tests/testthat/test-plot_pwy.R
tests/testthat/test-score_features.R
tests/testthat/test-select_ntop_per_pwy.R
tests/testthat/test-sif2edgelist.R
tests/testthat/test-sim-pants-mediation.R
tests/testthat/test-subset_gmat.R
tests/testthat/test-write_pants_xl.R
vignettes/PANTS-vignette.Rmd
