d9a0c2240aaecde273013386e6f1a7b4 *DESCRIPTION
45df272a1b1e59eaebb4dadea9c9209a *INDEX
f2d8cd230deae634a78b55c4708bb06e *Meta/Rd.rds
3116b09a69f681bcdc57557b4c235db7 *Meta/features.rds
62101381795dc4ce386be7187eaedbd5 *Meta/hsearch.rds
b2c1333ff568424956bcf9cca65de57c *Meta/links.rds
c596154929c190298fe4247edc6aad98 *Meta/nsInfo.rds
fe21a1e41992b5a2a147ef1032bc59c4 *Meta/package.rds
22b4dae25d604d304b967ce8f0486c12 *Meta/vignette.rds
b084cc7d1a00b1680cb4272af3e4293d *NAMESPACE
d41d8cd98f00b204e9800998ecf8427e *NEWS
ebf0fc819595d631b8bf280c4b049940 *R/TReNA
7182e78a4f832c1fd98f63072b63fcf6 *R/TReNA.rdb
5d203cb4fd591aee0605ba7c0124e4d9 *R/TReNA.rdx
90c0e8bfa2cf7ddd6468bd93728e0c4a *demos/Assess_Distributions.ipynb
d0f8ec216d6c5aa9c540a052384ded31 *demos/demoEnhancersDatabaseOnWhovian.R
7c46291e2d18d5c393cb0cb81a2c690e *demos/findPiez02RegulatorySnps.R
b963c9b3eeea35773d15e78140755fdc *demos/findTFs.R
568941e705e2d2e48d19fc8515c3a7ee *demos/runLassoSolver.R
f3f08b552e7b655835830eeee69808c6 *demos/test.png
7c1db56b0472c25a4c1bd94c36ffd586 *demos/trem2/go.R
23e34bd379004d96527ea45c1ac72e6b *doc/TReNA_Vignette.R
f09dc1bbb78480932e7cc0b164106259 *doc/TReNA_Vignette.Rmd
5f775904f3953abb1b76383312ba0429 *doc/TReNA_Vignette.html
e194e790ed9d0919c5d892ef184f464d *doc/index.html
55f2fbcdca4a18aa169b1d32bacadf25 *extdata/all_motifs.meme
4210742ee291565ffb4dcff88f735231 *extdata/ampAD.154genes.mef2cTFs.278samples.RData
dbead999a8d9f52a1333a83c9820b25f *extdata/ampAD.58genes.mef2cTFs.278samples.RData
a81cac5efd0767216e5f41b68c8ba4e6 *extdata/genome.sub.db
bcdbaa9741c0427f050d58e5d2f601cc *extdata/project.sub.db
e942c1e6fe9136e3008fc2191a4ec77b *extdata/yeast-53genes-536-samples.RData
815a541a23fe7c93d84966eb6f5193a7 *help/AnIndex
cc78e814f1c07d2c1091a29fc3699920 *help/TReNA.rdb
13d69a77882f3503d9012f3a3448bde1 *help/TReNA.rdx
d3df1501e5a8de51a9a96ccb587abbd4 *help/aliases.rds
20d00dafea2456effe49185343c36f42 *help/paths.rds
b57da1f5b37e12342e5ddb62933eca46 *html/00Index.html
b6763e6916890c631fdc3f2643803b1a *html/R.css
9bb7ca9af42cc1ee4159954386a02d04 *misc/createSQLiteDB.R
49dd7794824f19fffead817eed129895 *misc/footprintFinding/piq/makefile
6f962e99ba3a23ec481825bfcf7a32bb *misc/makeTRN-proximalanddistal-demo.R
e144e6dba9d76f1b04b750da054ecb8b *misc/makeTRN-proximalonly-demo.R
0d84813f34a485b92f0f52fdaee06f9c *misc/monteCarloTRN.R
dcfd3fb17c5cf72305bd02cf22c14004 *misc/runTReNA-demo.R
7be14cd38bf61ba16f2339fe39b440e9 *notes/fillEnhancerDatabase.txt
613cfa517ad81870727b8373222555bd *prep/dream5.yeast/createTestData.R
0abab296197492222ec31fecebd241e0 *unitTests/test_BayesSpikeSolver.R
4656944388005e85f551ccb7afe84be8 *unitTests/test_CandidateFilter.R
f37706114c7a5deb5b890d14572fc49f *unitTests/test_EnsembleSolver.R
3402f1cc01e273049f31db71c1f8463c *unitTests/test_FootprintFilter.R
c2f692a138893669f3a00dd2b3cdebb4 *unitTests/test_FootprintFinder.R
11c497f6873f421593c3a46c8d6564e6 *unitTests/test_LassoPVSolver.R
fedb42c3641f577fa0253cd0820a93b4 *unitTests/test_LassoSolver.R
a05d8af9c3af3979a04e2c8057777f7a *unitTests/test_NullFilter.R
578448fdc4ef263872942479a9df69e3 *unitTests/test_PearsonSolver.R
c6db49b9c2d82162a68b7f994db40683 *unitTests/test_RandomForestSolver.R
62ded46ad429b8ff6464f08dc8674e34 *unitTests/test_RidgeSolver.R
8c820dade6e5d67d5a6413385f44163e *unitTests/test_Solver.R
1e03cf6729071209735c56cbcf28dca6 *unitTests/test_SpearmanSolver.R
a72a5869fc06454631baf14bff9c2a99 *unitTests/test_SqrtLassoSolver.R
59201cf683752d17e76dfe94df4fdfa2 *unitTests/test_TReNA.R
c65c66d0196190cd2991dbe97735fb1f *unitTests/test_VarianceFilter.R
8349495ac8d9523ed3406b1fa21ca319 *utils/additionalTReNATests.R
9650189a5236a77e62a563cae12b5b01 *utils/createGenomeScaleModel.R
ab691993403cf6bb6702e5c61277d37b *utils/determineSqrtLambda.R
86c5eaf9ff52d63462fd7da4df83d141 *utils/evaluateAllSolvers.R
8bf84364e45060a1e4a4a77f68da9c07 *utils/extraFunctions.R
8e0cdefe1df4a74c1fba812d0f563dad *utils/runTReNA.R
187c3d72fa9e8de13ed98e58da1d384d *utils/test_runTReNA.R
