ce2b017ab98743123770a88d49934bd1 *DESCRIPTION
729c50955a736ca2094cfdcab65e564b *NAMESPACE
d41d8cd98f00b204e9800998ecf8427e *NEWS
f1e24b63fa8db631d57f01dce26e9302 *R/colByCopyNumber.R
c2e0e18bfc0648ecf289dd2b4f38fcf0 *R/getCopyNumberColors.R
7f66254328555cb42e6eeaf125f5da92 *R/loadCopyNumberCalls.R
e2abd957f93f80ea5ad8efd6c4b10f4d *R/loadCopyNumberCallsCNVkit.R
9275855718dffc99f584f3edd788fca6 *R/loadCopyNumberCallsCnmops.R
8c7bef1c74d6caa4d50292c12d117d30 *R/loadCopyNumberCallsDECoN.R
965dfefce9b5d59f89fd50c53f2f7863 *R/loadCopyNumberCallsDNAcopy.R
a5612b392f4547eab02d05ddec782316 *R/loadCopyNumberCallsPanelcnmops.R
5909c86dee0f13ef05a46e71fdb41226 *R/loadCopyNumberCallsPennCNV.R
93780b4111438a7c320d47f624c84326 *R/loadCopyNumberCallsSeg.R
278945b2d4ebc6fc9626a9cab187143d *R/loadSNPData.DNAcopy.R
caa4eda9564b59251ff2763d5093b2a1 *R/loadSNPData.R
920263e09524f421f247d510da14870d *R/loadSNPDataFromVCF.R
6d781309abd49554751e86d519da420a *R/plotBAF.R
f526fdd49bc5471c9031a52064e5c264 *R/plotCopyNumberCalls.R
f507491f0fedf6a2f051bebaf962d03b *R/plotCopyNumberCallsAsLines.R
625bb21844839e461efdb392fc343d4b *R/plotCopyNumberSummary.R
8a31249e7bdb6a183a25257d624afb78 *R/plotLRR.R
cbe95575b9131a66dc4d591fbe7a9ed4 *R/plotSingleCellCopyNumberCalls.R
16c251939a8254e55279f2f4f846beb8 *R/plotSingleCellCopyNumberSummary.R
7435b0f8ceb119aa06586d46c1422aba *R/utils.R
91b06e190e51d299b906157e6e4b291c *README.md
7a9c88339a5b2d9dd0c22fff4116e6a5 *build/vignette.rds
eb6ee4a9c933adc9d60f30e1859857bf *inst/doc/CopyNumberPlots.R
587e2d62d3808e97d1b43d79cbe7caf2 *inst/doc/CopyNumberPlots.Rmd
0b7cc41cb01b6c8b752925b0e64075a5 *inst/doc/CopyNumberPlots.html
44dd8adc9617469f90101ccff0bcb4db *inst/extdata/CNVkit_output.cnr
008d3351fb8c41e512fba63b74543b6d *inst/extdata/CNVkit_output.cns
4136f91f446256a68f86b278edab7c6f *inst/extdata/DECoN_output.txt
66c11b914cca097fab4022bc607133b5 *inst/extdata/DNACopy_output.seg
9fc4fa5f4efc34e93e1a0a11c79099f8 *inst/extdata/S1.rawdata.txt
fc90709b17e1210e4373edf2f0d4158d *inst/extdata/S1.segments.txt
7147d6dc743cd42b66256bf8b1e4fce8 *inst/extdata/S2.rawdata.txt
c712bb81fbac1d6b02135695a720369c *inst/extdata/S2.segments.txt
5ffd79cbbcd65077001bff19b41992c8 *inst/extdata/S3.rawdata.txt
d1a7ee3e9bc991c27b9fdc3fb56bde2a *inst/extdata/S3.segments.txt
91efe67aa6d6d76729238e8c81ba5470 *inst/extdata/SNP_example_data.csv
01f353d3efcb69fff9ab065d0ac38079 *inst/extdata/cn.mops.segmentation.csv
5161203ed876bce6f1bc20c86a8cba6a *inst/extdata/example.vcf.gz
644d3c7029cd7f5b79da1b9564a8e34d *inst/extdata/example.vcf.gz.tbi
df5dc01ccd1592979225e3e2474c21ad *inst/extdata/pennCNV.rawcnv
888d6b9933b6b99134e25ea40b80ac17 *inst/extdata/snp.data_test.csv
8fbda5278bcab786685c0464c0f461e2 *inst/extdata/snp.data_test2.csv
af34f6380bb5b0debddcbfc6d5636e84 *man/EnsemblStyle.Rd
0eb690fd82118b1fbc065e35fc1e04ce *man/UCSCStyle.Rd
913bcb3999ac184a946d76b430bd5fa1 *man/Ztree2Hclust.Rd
66993bd136620821ca55f7d9d9738b80 *man/colByCopyNumber.Rd
27eca57cdea50cfc28131e9bfa52c8ed *man/computeHclustPlotOrder.Rd
fe122f148d26bf0219661cd436ed7e1a *man/getBAFColumn.Rd
0dd991df6d5bda8f8f7852e9a0ff4506 *man/getChrColumn.Rd
7e4b2d9d4af4fe4ceb21c31a4291fb54 *man/getColumn.Rd
b73e6e79b7dc9f45352bf85dfb8ab908 *man/getCopyNumberColors.Rd
283f9efdd2f4a02d1f8cdc9588bc344d *man/getCopyNumberColumn.Rd
0e0c9c234bf206fcc5699db847c4b322 *man/getEndColumn.Rd
0785218add70ab5841c469433bc13b6d *man/getIDColumn.Rd
e67de1d0bd3605fcdf5b0b9d13cfcfcb *man/getLOHColumn.Rd
52e0a0fd3d53869382c62ee954c9269a *man/getLRRColumn.Rd
8d00a2fc3360c499631322618b8af148 *man/getPosColumn.Rd
4c76d32b93bdbd18e8f4e438d31ae88e *man/getSegmentValueColumn.Rd
6b1d06971c9b68bd647d32cfbac4c8d8 *man/getStartColumn.Rd
288172bac851e6c413660c73d3052940 *man/loadCopyNumberCalls.Rd
b2d3d2f5bcaa609afd4b0f80e9c6ba70 *man/loadCopyNumberCallsCNVkit.Rd
b1b2cbc3daa299a9681731c5d316cca0 *man/loadCopyNumberCallsCnmops.Rd
d55b4b9b4d65d4ab909bd96d355f4cfc *man/loadCopyNumberCallsDECoN.Rd
84f5cc663801971db77e0aba7879f417 *man/loadCopyNumberCallsDNAcopy.Rd
1202765eade24bc89d727f08629822a0 *man/loadCopyNumberCallsPanelcnmops.Rd
3bc9542c20bac8b64b6e1965a4811cb8 *man/loadCopyNumberCallsSeg.Rd
f4413956a9b8602c9b0f9adaabd3382e *man/loadCopyNumberCallspennCNV.Rd
077dbbd24b0a35154a5943d8c2bfbf69 *man/loadSNPData.Rd
d0e0c50f4a3c215cbf14dcdbd5ff72c7 *man/loadSNPDataDNAcopy.Rd
0980fd199fbbbc6ca4d9bf3feeadaa0e *man/loadSNPDataFromVCF.Rd
11b9e0fe27407af840a407b115c3d7be *man/plotBAF.Rd
70552d6168539d9c3fd7d50c201d0b95 *man/plotCopyNumberCalls.Rd
9b7c5f58728abeb8e37ba52ba2fd042b *man/plotCopyNumberCallsAsLines.Rd
63070d7b34512334d1077ccbb76727e6 *man/plotCopyNumberSummary.Rd
5f17aea2519cdf2636503bef0a3a9ae2 *man/plotLRR.Rd
9a995914de5ad22e5c2f2daa840c18a3 *man/plotSingleCellCopyNumberCalls.Rd
f119f8476ae601aa7b6514630e71ba8a *man/plotSingleCellCopyNumberSummary.Rd
3eae7356052744410ff0626e8d98c37e *man/prepareLabels.Rd
bc05c13ac1b50ce329855b3fa14e3cac *man/readHDF5Ztree.Rd
64075686054297bd411a35a7e41eca97 *man/removeNAs.Rd
119672046a1ed23295e7bbbe39001764 *man/transformChr.Rd
48ce41b3f920d2f35c5ec7b2f858eb6d *tests/testthat.R
fded5b697febd37f6cd6ea95768e7ca1 *tests/testthat/test_utils.R
587e2d62d3808e97d1b43d79cbe7caf2 *vignettes/CopyNumberPlots.Rmd
