8ddc3cbc73be3dc01e58b831f053085a *DESCRIPTION
fcd2e4e4c143ef17c12d13e731334865 *NAMESPACE
2149c89108ae90ff2471bc9484844a08 *NEWS
24afed3048f90aededfd87e4f3c60092 *R/AllClasses.R
cd0397b35f6eeb0d85cf92242c972733 *R/AllGenerics.R
006f032e9e5f126e29ab54d743b6fd2e *R/HiCDOC-package.R
6f310d148de476af21709d59f75bb310 *R/RcppExports.R
81095bd87dbc6b05d8097d14496869b2 *R/data.R
fbd4a9ccbb0ff3e833d530ba36caa6cd *R/detectCompartments.R
b10ad18775077b45960336fc0fc24588 *R/filterSmallChromosomes.R
60f3cac89f13aee7251ce15c43c06997 *R/filterSparseReplicates.R
db52fcd4bed87656da2b8bac8e2ec4bd *R/filterWeakPositions.R
83b843e82d8fd2375b5100827f022313 *R/internalApply.R
ab81ccc15537ac372bf40b6acd6819ee *R/internalConstructorHelpers.R
c9a09dba69c384e6b5f4d455d93d466e *R/internalConverters.R
c90a102d19a2a8239b073ed8e0c76e11 *R/internalParsers.R
ed0d5b793da9227b4946f00c896bb514 *R/internalPlotHelpers.R
d5806d6201fbca9bf09b2e8e0e0d4ec9 *R/internalValidators.R
d5adf29a7b033c0c7c54eff13df2fe87 *R/methods.R
99430002b9b700eb789bb007c9774924 *R/normalizeBiologicalBiases.R
3073883bc5e4ce6ddfc118339b7f3b8a *R/normalizeDistanceEffect.R
e6e72c05083baeaa3fd14b646adee583 *R/normalizeTechnicalBiases.R
c2150a9be4d6987d297d0cec643447f3 *R/plotCentroids.R
376a6cffba099ca5867cf5996473e69f *R/plotCompartmentChanges.R
fcf373e6593a1b40b71689c1766f6cad *R/plotCompartments.R
47dd9f99f127c07c4bfe3a7f66205dfe *R/plotConcordanceDifferences.R
7fb3b61d916ef9f3cdea638108745a70 *R/plotConcordances.R
2e7ca774ffaedb784ea0a919ab41c3c7 *R/plotDistanceEffect.R
3d0b168a1d61c152f8bd71bfc246c798 *R/plotInteractions.R
bc6d112adf9a1cb84d29b9ea9d8a157c *R/plotSelfInteractionRatios.R
7a193815f3deee23596e4484ed3e23ba *R/reduceDataSet.R
79803f6ff1be94bdd9bb92f7d19197bc *R/sanityChecks.R
a8f612ad232765a8f03762270fbdb9a7 *R/zzz.R
c9cfd34188a3d996890b0c560aafd736 *README.md
917fe38387e2d4bdf166555b97e65125 *build/vignette.rds
6727192385445d9e77619766e041151b *data/datalist
32bc84e76f14f5d0adb2210f48ff0bf3 *data/exampleHiCDOCDataSet.rda
60cf8c84c1f5441d964099e87c8eb99e *data/exampleHiCDOCDataSetProcessed.rda
ec045d2c332a97f2a7f193f5f7692424 *inst/doc/HiCDOC.R
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e77a1842f4ce21de5372e1272fd8dc13 *inst/doc/HiCDOC.html
f727ca8e46fcffd36cf4c8b82ebe57c4 *inst/extdata/liver_18_10M.hic
1410a0900a7697c825c35fb839a47783 *inst/extdata/liver_18_10M.mcool
d4c12fd2f88aaa2a9d4dd09341f1d079 *inst/extdata/liver_18_10M_500000.bed
8d5864f1e6e3412a75ce67d1299978d6 *inst/extdata/liver_18_10M_500000.cool
a4045665a89ddefd2d6e757ed19ae21b *inst/extdata/liver_18_10M_500000.matrix
79d4349798eb216e7bf52f7fd6b99983 *inst/extdata/liver_18_10M_500000.tsv
97805a43f75c836c85ddf4c32b9b52d9 *man/HiCDOC-package.Rd
f708c1898d779906c4afc65ee8b99262 *man/HiCDOC.Rd
34bc1dbdd94a8029bd955c6c292aa2f7 *man/HiCDOCDataSet-class.Rd
c10dd66e53f2b034439a885a718749fb *man/HiCDOCDataSet-methods.Rd
086cd2ea3fab05ec1132995cb1228a5a *man/HiCDOCDataSet-parameters.Rd
974292925866254019bbd6dd0d050bf8 *man/HiCDOCDataSetFromCool.Rd
5d3f1dbb12d42411664c203f6749bc4d *man/HiCDOCDataSetFromHiC.Rd
23d59714dacae2adf242ad0cdef7c54a *man/HiCDOCDataSetFromHiCPro.Rd
77b151902880c6bbd7b346710cbf6d04 *man/HiCDOCDataSetFromTabular.Rd
1cde026846af4784e0809fe662c7375b *man/detectCompartments.Rd
f039bcc75cd8a88788488855195c4c79 *man/exampleHiCDOCDataSet.Rd
0acffa13ec21f6a832a7a6ec19e75df2 *man/exampleHiCDOCDataSetProcessed.Rd
8f42931c482d6ab177810fc9b4adca76 *man/filterSmallChromosomes.Rd
521237368ddd1b32ead49c41ac6fcb13 *man/filterSparseReplicates.Rd
ff93b151eff0184e66515d3154692dec *man/filterWeakPositions.Rd
90dbcde434f68c2257327f876aca31cf *man/normalizeBiologicalBiases.Rd
1660de0b17e3c24743e5e7229be94ac7 *man/normalizeDistanceEffect.Rd
e67b2ba65805dbdada6a831529f583f2 *man/normalizeTechnicalBiases.Rd
bfd9e3553a0b759f92c5d8135282a5d0 *man/plotCentroids.Rd
879dfdcb2616c30776f2a1e59c21fc61 *man/plotCompartmentChanges.Rd
aeee4150e62297cd14cb09267c092ca0 *man/plotCompartments.Rd
4fdabea5070d313cb7523f873e008921 *man/plotConcordanceDifferences.Rd
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e954b5a3034f19973ecd96cceb43475a *man/plotDistanceEffect.Rd
b1c789c047d99262b5899bb8fb32a58a *man/plotInteractions.Rd
1b112b9bdf06f7b7c427954ae353b330 *man/plotSelfInteractionRatios.Rd
81eaab6aea170f9fbc51f78ee0521b7a *man/reduceHiCDOCDataSet.Rd
8a8d0e197e34e74255eb32ccb53887c3 *src/Makevars
479d531e94a1a31fcc5d197ad888b5b0 *src/RcppExports.cpp
1a1fb33d6d8da480ef8281bab6c68727 *src/constrainedClustering.cpp
3aff371f39786160c005c2cf8cb4a409 *src/parseHiCFile.cpp
db5b1bec918e4b82d4bcc511e72f1943 *tests/testthat.R
5618fa916322e2942c95d3403c49e03d *tests/testthat/Rplots.pdf
0d0178b188b74dd252b2572eca522942 *tests/testthat/test-HiCDOCDataSetFromCool.R
6392cf8fa1a4cf03d624476343901018 *tests/testthat/test-HiCDOCDataSetFromHiCPro.R
75c60bbe96bcb17568170d55f21233c0 *tests/testthat/test-HiCDOCDataSetFromHic.R
b7dced8ed5dd8cf989491f8767985790 *tests/testthat/test-HiCDOCDataSetFromTabular.R
edfb38e7a11b32d522dc779242508f80 *tests/testthat/test-defaultHiCDOCParameters.R
34b9f364ed53feb0ab56aa63f2c3f477 *tests/testthat/test-detectCompartments.R
307e2aae1561a5b20d74e5a85bafc8be *tests/testthat/test-filterSmallChromosomes.R
ddb1e9caade8dafede5a5a43bb58cb63 *tests/testthat/test-filterSparseReplicates.R
2c705388bb663526a494a7bcca5eb188 *tests/testthat/test-filterWeakPositions.R
ec5be098aa24bf7b37a7be251ce17687 *tests/testthat/test-normalizeBiologicalBiases.R
5d94256ad81a1656deec25dd26269805 *tests/testthat/test-normalizeDistanceEffect.R
6f30e9691b7d0ee32bfc9c2d05f7b8fe *tests/testthat/test-normalizeTechnicalBiases.R
67e20ddd7a7d9eb3ce1d7c156c7f42ec *tests/testthat/test-plotCentroids.R
28f6657264c9165b548b7f5b637342fa *tests/testthat/test-plotCompartmentChanges.R
5dceb304ca5437d4edfe1b73b8a3324f *tests/testthat/test-plotCompartments.R
e4f13a24464e1c01a2b14273c45f6f1a *tests/testthat/test-plotConcordanceDifferences.R
db9c9bea71c4096117ffbab00eb9708f *tests/testthat/test-plotConcordances.R
e4e3cb41349715c49dc2a75a2e86c2e3 *tests/testthat/test-plotDistanceEffect.R
8d2d244f6c5626fad939ff7090f037e8 *tests/testthat/test-plotInteractions.R
547d040f4dfe6730b8ec6e733d6b5a95 *tests/testthat/test-plotSelfInteractionRatios.R
416b011f196122f7c8ce5a7183a2f45b *tests/testthat/test-reduceHiCDOCDataSet.R
f1fd2063f9118991377cb470d9540f50 *vignettes/HiCDOC.Rmd
4c1b61ed807f643ef2e63eb7f82af973 *vignettes/library.bib
