c33f1325eb649b38780b317cfbbb3ca0 *DESCRIPTION
891843da1def97eedf32dbfedf63269b *NAMESPACE
0e0fd6e91bcd7d258b9f77df538f276b *NEWS.md
eb3d8293dcfea68f20d99d8152e6f4e4 *R/addColumn.R
7554615f35fd71d1e3209a5347b0da57 *R/assignMutations.R
2de8c0cfe576351f623daa59b76e5e05 *R/assignQuantityToMutation.R
ebb0d9813fdb9b3fe06a141ebe447b42 *R/assignQuantityToSP.R
0eaba48be36200d6e9e91b5ceb081ea0 *R/buildMultiSamplePhylo.R
080bd021e8c3c8f5e41d8b17a8182e8b *R/buildPhylo.R
f66174cafb843d2a60493161db6a388d *R/cellfrequency_pdf.R
238905c11750f6768eeeac88b5106d97 *R/clusterCellFrequencies.R
2e78298aa8e82cb42cb9fa27de413ed2 *R/computeCellFrequencyDistributions.R
f7bf2d6192a657f1850cca805ddf220b *R/onLoad.R
838860889f38b6fed4cd487eca04b9bc *R/plotSPs.R
81757a9d300d5ea8ebabdf8577436543 *R/readSNVandCBS.R
b71270e063d2a65216581f6964df481f *R/runExPANdS.R
ab9b341bfd4c3b08d33af8c497bc1261 *R/sysdata.rda
1a0b19b05e008071d14e225054602b0f *build/vignette.rds
664284e0624f9ce0762af69e78b0b03e *data/cbs.rda
e49b6d61d3960c03b775dc15a5b65cc9 *data/simulation.rda
6fb02c3ab0905057bf173dd43c1b8908 *data/snv.rda
3c1ffcb817226acc62dbed8e33662f73 *inst/doc/expands.R
d874c813433a7f628a3bb6948e2a0976 *inst/doc/expands.Rnw
ea5051e2354a70229b18747f402adb84 *inst/doc/expands.pdf
d883410e5b9693d38b1dcc615289c31c *inst/java/expands.jar
1c32031c57f7ad9a99fef07bcf1209e8 *java/lib/commons-math3-3.0.jar
4a2c857e331c69d36883e85dde3ba41f *java/src/core/ParallelSubpopulations.java
e2b6d1ea5eb0982a0e6105c55ca5be3d *java/src/core/Subpopulation.java
db3919c3a898a8e41b9e989b7230ca06 *java/src/core/utils/AFtimesCopyNumber.java
2cd3126beeadb88f5f671e5c6f78f7eb *java/src/core/utils/Common.java
d852f744f0c9459ee9d540617f014b86 *java/src/core/utils/CopyNumber.java
50dc18552be6982e694fda1c2f84d703 *java/src/core/utils/Measurement.java
30eeb40d35ae146e57ebc9a95f00a4f3 *java/src/core/utils/NotAValidCompositionException.java
30d4997ed255656c2b5b7dbaf3022c93 *java/uml/EXPANDS.mdzip
34e6d943306a82ee0a66f67244e6622e *java/uml/ParallelSubpopulations.tif
f671215195810e68bc98292c386efac1 *java/uml/expands2.tif
da8e6b9c49bf99762d4bcdb7f7c5498c *man/assignMutations.Rd
6b78ece736b19a23698846a621154083 *man/assignQuantityToMutation.Rd
210e448ab9986c51dc360e794473b6fc *man/assignQuantityToSP.Rd
73d887f610b1b081f7d96513fb48b2bc *man/buildMultiSamplePhylo.Rd
4bf1bb825c8a11c59996c223aa424119 *man/buildPhylo.Rd
182bfe9986fe62d975e0cdc4a8baf5f6 *man/cbs.Rd
e74223949e3167b0ea9746a53b5f4ab6 *man/cellfrequency_pdf.Rd
c8fdd299b7d165a9f2703ff89736217c *man/clusterCellFrequencies.Rd
655fcb51d2483ee11ebb55e87069f771 *man/computeCellFrequencyDistributions.Rd
ef8f53bb9801612c215f0c7a8b98454d *man/plotSPs.Rd
a2f8272a907692ff63f0256207acad06 *man/roi.Rd
5a5e74e9287ef798562e57af2818e98d *man/runExPANdS.Rd
1c96eeb865b85a2267119aeb498a9d0b *man/simulation.Rd
31e52065878423e41bbd7827e4c7ef09 *man/snv.Rd
b80785aaa809120eec20fe84f239736d *vignettes/ID_MRD_001_metKidney.cbs
d70a9e3d24829aa510e1d68710bba037 *vignettes/ID_MRD_001_metKidney.sps
c433273ed3b6acae84450a565dc14fea *vignettes/ID_MRD_001_metLung.cbs
251059a668277795969a57288b9204d3 *vignettes/ID_MRD_001_metLung.sps
8e23abaf58395fc8cfcec977ab9d5c6f *vignettes/ID_MRD_001_primPancreas.cbs
67f9470540491bf366a88ef14a2f7d1e *vignettes/ID_MRD_001_primPancreas.sps
d874c813433a7f628a3bb6948e2a0976 *vignettes/expands.Rnw
291e185f5056595af2f5aa27576d8887 *vignettes/expands.bib
