db91ae0ace481ab17c3fcd82438da9e9 *DESCRIPTION
b363379eda17ca1d0c324b892b1d2a92 *LICENSE
feaa4d9e6a449da342ce3f653752bf55 *NAMESPACE
54e2eb160db6033130e54fcf3ce52e37 *NEWS.md
0bc70c02e8896d984f4c8726630326e3 *R/AllClasses.R
c9471d1713e4b1bd3fa274460ae5967a *R/AllGenerics.R
8185ea6e2d57bf956c29001cf3d6b5ed *R/AllMethods.R
626e913f03eeb03fa0650215d6cb51bb *R/function_addIDsToVariants.R
d4f1678ae908f5e68938fbf47763ecc9 *R/function_addIMDcutoffValuesToSegments.R
752ec3a8797116a54a57de8e359f4f51 *R/function_annotateGenomicVariants.R
e3004f28f1db546c796a240f82c9e458 *R/function_annotateSegments.R
e6ac0678c911bc34105d63b2a8421630 *R/function_constructKatdetect.R
87487480b0b819635702a7af7f25562b *R/function_detectKataegis.R
a61e95ddad2fd67ea963642a714f37ee *R/function_determineIMDcutoffValues.R
9f8aad13a39c062630e85f5b31c2d0c6 *R/function_determineKataegisFoci.R
d286af57de8829cb0925c067ec344427 *R/function_generateSyntheticData.R
7e8fbc2c2b97dda2c1b18a2e663e0245 *R/function_getChromosomeLength.R
50a3b89e7ca96c9e89dfda194b995331 *R/function_getInfo.R
c3a1fb01c42ba3654c37ee3a27b31bce *R/function_importGenomicVariants.R
b0d485f2716c69a59524e01f6adf77b7 *R/function_performChangepointDetection.R
9626b5aebdb2e252a11c74fb04abcfdf *R/function_processGenomicVariants.R
8740b16db1be055db7463d39b2828c02 *R/function_rainfallPlot.R
e8cc1b69c51993aea301448df5132887 *R/function_validateInputdetectKataegis.R
95142cebe9096ef1cfdd9dee5905e7ef *R/katdetectr.R
f03e9cefcf26a22cff48a3d6ffd3bbda *README.md
45eb4af7bacdd94afc02aa138496ee96 *build/vignette.rds
a85f3bf00542986969f414a90d489e59 *inst/CITATION
64f179598b4dbceaa24b921976947d0c *inst/REFERENCES.bib
d322e28823755b31a440f3ce9340dae1 *inst/doc/General_overview.R
3ae3036dfccc62ea77cab5b7529e6ff6 *inst/doc/General_overview.Rmd
4664bd9bcbc5ad441d799b903e358ad4 *inst/doc/General_overview.html
1a50de24f975c2c73a6e29d801b73ccc *inst/extdata/APL_primary.maf
c357c895adbdfd043d0ce22d56e96703 *inst/extdata/CPTAC_Breast.vcf
314b37edb3c13aa1004441ab108aa88c *inst/extdata/syntheticData.RData
e0a4185aedd6c5712e53eff191bfe48a *inst/script/data.R
b991ca9cf51c55f0e040160b77880285 *man/KatDetect.Rd
2e9da7611d7c31085d67ddb595995863 *man/constructKatdetect.Rd
58a6b7ea544ebb3fdd3fe4ce6c4d9b67 *man/detectKataegis.Rd
668420d1974ab3863cd3cfed45147bb2 *man/generateSyntheticData.Rd
d95428c76d73a092fdd8efc5d88b968f *man/getGenomicVariants.Rd
ea735598914f9a6777e7840561053685 *man/getInfo.Rd
d89135669e06ed200e42a3d4c2bfcb9a *man/getKataegisFoci.Rd
8c0999d57a9b4a4ce993f0c6c45998d5 *man/getSegments.Rd
1adf2c9752d2b962db557958d9d2694d *man/katdetectr.Rd
8c212e604051095f7420b4da0c8227e3 *man/rainfallPlot.Rd
edaba3d0ed09979cbb675695ba51812d *tests/testthat.R
b667865a65b2433b9fe15c84c316527c *tests/testthat/test_ImportGenomicVariants.R
4b61da6cc04f19fa2ec5e711b8c242c0 *tests/testthat/test_addKataegisIDtoVariants.R
0635c0e07681e06d4d17b4f454daac44 *tests/testthat/test_annotateGenomicVariants.R
c3d483b0df19d0d7fa330d53b702200d *tests/testthat/test_annotateSegments.R
2c12037b7f03b11aa3fbbab778c0abbf *tests/testthat/test_determineKataegisFoci.R
8083ea2033fe8fa3bcf2beb562df3593 *tests/testthat/test_generateSyntheticData.R
de19c1363256b8d1714827c4518a4636 *tests/testthat/test_getter_methods.R
6c5ed5b2c53bd87204193e56bae13d66 *tests/testthat/test_katdetect_object.R
baec0ab5d6d39cd08167f0da62239aba *tests/testthat/test_performCD.R
2ef2af1fa586c5fc9f67c60e3312a95b *tests/testthat/test_processGenomicVariants.R
c65196070586b12c37ed07a3b6d674e0 *tests/testthat/test_rainfallPlot.R
7d9b0726690ff7b9a20fa6aebb511cee *tests/testthat/test_refSeq_argument.R
3ae3036dfccc62ea77cab5b7529e6ff6 *vignettes/General_overview.Rmd
