7b2b5685e33eb6d841cad743e8876c8d *DESCRIPTION
c616f0fa102735e1383d720de898d8f9 *R/CNV.analyze.R
e8319c744d379f486053c923fde3b01e *R/LOH.analyze.R
e5acc92a6c1449792dec873f172a87df *R/calculate.logR.R
752956b95c3fd526263b51fcbae460f3 *R/chr.median.R
8998565310c03730694585b1a5c089ff *R/classify.eCNV.R
1cdacaa5c1c460a4b97d8fcb6c57064c *R/classify.logR.R
e54a0c3fe9c8f113c626a4f6d4784835 *R/cnv.points.R
4c8be9eaa6b68aa4a389a5bd0a59f19a *R/combine.CNV.R
17e17e13dce74c9e6fb278f916aa8f94 *R/combine.LOH.R
003b1f3405a697507267ec4ce3f76994 *R/combine.baf.R
fa6df900419c3fa0ce4e69f698400a65 *R/do.DNAcopy.R
6fe76cdc7c9b103a3eda828506621511 *R/do.merge.cnv.intervals.R
424093108d7d7d29ca681ea6645627a3 *R/do.merge.loh.intervals.R
f356cfda9d291a8ec52a8b254d1a9ae6 *R/do.plot.eCNV.R
f6beb84934fc70df562c349c7ff01765 *R/do.plot.loh.R
0c4345bba723b9f620aad93906d9a02e *R/do.plot.one.eCNV.R
e4220929a23c368cd4d3fe9a6d2f284d *R/do.plot.one.loh.R
00b64ac75df3ca0b37306633a906b630 *R/expand.loh.R
dce322f8deaf43e3f50e734fce1c2b4f *R/find.max.of.2lists.R
3f6d1c66b9b3f67e483a8f6f98abf0fe *R/find.min.of.2lists.R
39e0259b1bde3f90adcd8d92fafb4847 *R/get.AUC.R
30184417bf1c8cf8830ffb6da1747379 *R/get.alpha.R
9addbe542357a8eee759b58a62684fdf *R/get.alpha.inv.R
5adc8b75252faa8273b3380d7fc33a90 *R/get.end.position.R
02090569d8725ca7e75b4f9ab4d4a784 *R/get.power.R
3931114afbc2695c233e10816d930b72 *R/get.power.inv.R
abdb8791ac855b801507eacd650348b1 *R/get.proper.cnv.positions.R
d16175e8d22b5b58b6657f36a2608b97 *R/get.r.cutoff.R
177cddd5cd15ed6a6c5ba0070a5fd060 *R/get.sensitivity.R
0a762104408d4346fda4dc71db24be7b *R/get.specificity.R
bcaa590eae176144459570e8f3901195 *R/guesstimate.contamination.R
0433cc2c949dea7a57bba1e5665289d0 *R/guesstimate.contarmination.R
5487615ca3b313c73c85b0c343a5a9f4 *R/make.chunk.R
16b1db907d7780daa302b831f43082cb *R/make.loh.chunk.R
5d67af0891e4d36e74ccee6ba3b2dd51 *R/make.loh.strata.R
f8da00e8a7671ac7832f7d05826edf60 *R/multi.CNV.analyze.R
b02d47a6bfd7b88ff274e1a2aa35a4f0 *R/multi.LOH.analyze.R
0438821ee68179709a8639b4cb6e925b *R/normalize.logR.R
4219e0f3478205cc87be9aafceaee1b6 *R/one.sample.loh.test.R
7030beee0536ec085309f527f4d2f1eb *R/phalfnorm.R
408fef3139af40a78aa322f8f750a08d *R/pool.coverage.R
a5b7da8353d72962896fbefc3349070f *R/pool.coverage.from.files.R
03a819c63a08076efc1ad9bdbbb249d8 *R/read.all.coverage.R
38fa32c9fd349714f7cb16a5739a8f81 *R/read.coverage.gtf.R
8d71a3161799d88081e98afcdab6fa45 *R/read.eCNV.R
f85bb650e122a29625082d34d2042796 *R/read.gtf.R
e0ffe1484d1b267f20025337930b3681 *R/save.logR.R
7efaabf5f68998cbe25f03c8a50086db *R/strip.chr.name.R
4e15a1f71ca5caab06f63ae1f971669c *R/two.sample.loh.CMH.test.R
6690b112d1691ebd0e352818a65891d7 *R/two.sample.loh.deviation.test.R
ec8c28de3868e804fe68d76b09f2c4e9 *R/two.sample.loh.test.R
900af24081b2f8ceec52d025ac1e0c8a *R/write.loh.output.R
301999d9f881c246ceec70de8695a9fe *R/write.output.R
426c4d896bf0530824e62bd30d8ae27d *data/COVERAGE_HEADER.rda
7a1addb13bcd5affc52bc18b45307ff2 *data/MIL.rda
4b5945932665eb285a4951568832517d *data/RBIND_LIM.rda
a84053244c264ed5012198ffb5ce679f *data/chr.hash.rda
0bed50abc02d8724b3191553cdc26775 *data/colors.rda
d1c68ea68ef1972f904ec704d31e7426 *data/good.percent.rda
dca92c18adf5a62b0b0da6915db4ca70 *data/my.cols.rda
9c6c93a734fe9fa064ef54bf5bcc5532 *data/r.cutoffs.rda
203a1be71c0ba4555b779633f17ceebd *data/rho.list.rda
c9acdf18cb00889d7443bfc89bccb880 *data/test.num.copy.rda
63b8bba7821ff161e143b15fdc8d7bc0 *data/window.sizes.rda
bea3ce5ea674cbd3668c32e686441cc9 *man/CNV.analyze.Rd
2f882c7b07d52743aa2f5bcd39242339 *man/ExomeCNV-package.Rd
f13562734723e4e73df70b3b59f114ad *man/LOH.analyze.Rd
c20eb300f9f706f3c44c97aacc0142ef *man/calculate.logR.Rd
8be9575a38c7bba20202f34fb663fda3 *man/chr.hash.Rd
43283a06971840a0864e37fe027c8294 *man/classify.eCNV.Rd
18b63bf64a6983a2d299ae3aacc31ece *man/colors.Rd
b793c43b7f7a912141d6fa2c7c9ad53a *man/combine.CNV.Rd
8922bc5b5c9760efe3863dc11b41153c *man/do.plot.eCNV.Rd
405a5f1e24e7ad0efe1be9df0b3db246 *man/do.plot.loh.Rd
c3ae460f8f4e2b4af44d667d27c40002 *man/expand.loh.Rd
50b9ce05bb8f1f1a6ef0688cbf0ca5f9 *man/get.AUC.Rd
e8d3ab57002f0be2be13c4638812c395 *man/guesstimate.contamination.Rd
8fb320a79d2247880c06fb6493b28395 *man/multi.CNV.analyze.Rd
ba0d22a50ad8484d7a3ce1fce9673d01 *man/multi.LOH.analyze.Rd
229a313c9f8a10f9740152ff138cb13e *man/pool.coverage.Rd
9b6f55820aaee712be9b7bc62a53eed2 *man/read.all.coverage.Rd
c760d5f553f871bbd9aa9144adf7e4c5 *man/read.coverage.gtf.Rd
5ed11e3ec3ec5518ce3ecd9b544fcc53 *man/read.eCNV.Rd
9ea12ff9ec557b4fde6ebaed981cccce *man/save.logR.Rd
d077550c7c345f0ef2f1e6eb226ca995 *man/write.loh.output.Rd
79708d182840508a0abaf6e681672020 *man/write.output.Rd
