482d0e0802b197fe10f87e7369c10334 *DESCRIPTION
9eb146f470f6fde40724c2277472bd92 *NAMESPACE
62256db47cb27baa9a235d16168b80d1 *R/RcppExports.R
603ea6178259d0c99887e781dbbc1ec7 *R/access_wrappers.R
f7624f4f0a78abc0c5b43869e92b1d6d *R/communities.R
5f503b933533bf382ba64ee1fc7ec911 *R/conclass.R
7a00874d485d6c0e2f56088255c7c36e *R/conos.R
f4ebec7ebbece32a6c30dd5b70b357f0 *R/data.R
545f7373d4277e51359abf47f60b16a3 *R/de_functions.R
e9668258bcd219ac9ebd856af220c68a *R/graph_embedding.R
39a3d52c984632d3f8809411a307784b *R/integrations.R
3cddfd128e8abb8286f5f7084fae9a07 *R/largeVis.R
e2ab9e540584d54c9b85b5b692dabd5d *R/plot.R
b20483653d29facfa9b2ecedfaa784b1 *README.md
46f8ff274967c4244d66e3696d745233 *data/small_panel.preprocessed.rda
ff08b0575b5fdf2efc9e439157d95f2c *inst/COPYRIGHTS
a3e977520ed794ae5003e2e56b869959 *inst/conos_logo.png
74b825d278099961cd045b0b4a9d3741 *inst/extdata/cellannot.txt
78a2192bd78c326dc8dda9f25347083b *inst/scanpy_integration.ipynb
c4898c4810273ce4f1e4aa85f3b0f56f *man/Conos.Rd
3b4bc4c5a1138783fafacfed07e908a9 *man/basicSeuratProc.Rd
c13397b8e60fe6040f09ceeee8621501 *man/bestClusterThresholds.Rd
3659cb9129afbac64b3a9a485ab5a8cf *man/bestClusterTreeThresholds.Rd
cab6dacd6c5d21f392f24c6a56af437e *man/buildWijMatrix.Rd
ffb47011baef510cdfd1ef9cca391fe3 *man/checkCountsWholeNumbers.Rd
c5d6617d5fe238785008ef2282983935 *man/convertToPagoda2.Rd
391094ce7efaf9e1971ea96702697cdc *man/edgeMat.Rd
deab91fea4c0615c829ce3c59e73189e *man/estimateWeightEntropyPerCell.Rd
5b3af5e9eed893f6d74ae5640dd96eeb *man/findSubcommunities.Rd
e048c6d7ee6d23496957a579d5112cc3 *man/getBetweenCellTypeCorrectedDE.Rd
d7525969d6785515e984af82306a0c7f *man/getBetweenCellTypeDE.Rd
187889757de357e31ea9b802b1ad6ca8 *man/getCellNames.Rd
1d25c2a13fc719c032cbbb571d938e25 *man/getClusterRelationshipConsistency.Rd
2b92048d4b8cc188fd77ff85dcd5c021 *man/getClustering.Rd
9e58f0f05d13d8c03c339e40057d2cc8 *man/getClusteringGroups.Rd
e49bde0c2ca3f288d6707aac9a583ed4 *man/getCountMatrix.Rd
54e3bb29f74909eb027d81678a4877bb *man/getEmbedding.Rd
3e0d215f95a30bdd3926dbbe439b101a *man/getGeneExpression.Rd
be28ae13440353d942c44f240ea4e99f *man/getGenes.Rd
1e5ba464976fadca8c9638909112f074 *man/getGlobalClusterMarkers.Rd
462b579367c5b9852572a4dac86aaa4e *man/getNeighborMatrix.Rd
537480073b21540bd009b515593d2d33 *man/getOdGenesUniformly.Rd
3b029da616c7cb6bdf32e252fd32a6b2 *man/getOverdispersedGenes.Rd
74c24515f4dd2ace851011dfc9389b9b *man/getPca.Rd
f0d881c3af978ae15f6633ff6139cf1c *man/getPerCellTypeDE.Rd
3085a03cb3964e0a08b57a9a00fcdf36 *man/getPercentGlobalClusters.Rd
d85929631ef4544f06653d5b833e3a5a *man/getRawCountMatrix.Rd
44a4cbe5260abd7cae9e1dc09a02f253 *man/getSampleNamePerCell.Rd
961de2efbdd636026ab86b16c0bd64a0 *man/greedyModularityCut.Rd
f15f15a403b9e469059a674f02816f8e *man/multimulti.community.Rd
6a1ea40d681db4e8b81e4686a6a0a293 *man/multitrap.community.Rd
d6637eef91ffc5a9a36a0ae3418668bd *man/namedLevels.Rd
61699e94a8900d381d1364b93dbbad29 *man/namedNames.Rd
c041a31d0eb9ffe3102ff7c2316ff4bf *man/p2app4conos.Rd
48f4786045d233cc6df17eadffbf5717 *man/plotClusterBarplots.Rd
cf492dd8a19f525ab7f1bc3d8ededb6a *man/plotClusterBoxPlotsByAppType.Rd
47714979ce1ef786fc81f8694492b8f1 *man/plotComponentVariance.Rd
37b5ed6601a00bbd043405399c9e1e65 *man/plotDEheatmap.Rd
a2ed345ad8c01596473263bbfe0f86bb *man/plotEmbeddings.Rd
19330b17ddd3b209974b00f8428df09c *man/plotSamples.Rd
f4600780e24141c643dbf2e2d7fcd0e2 *man/projectKNNs.Rd
6c4a1d42d42bfdb8b2845f80f5339f08 *man/propagateLabelsDiffusion.Rd
abbd425f9cfecf0966d2f27a93acccf2 *man/quickCCA.Rd
94a3c14ad74aef53257d256473bb1e43 *man/quickCPCA.Rd
73d740a67513131ea7c73eb1239ab55d *man/quickPlainPCA.Rd
2b66dec015fe6970cbe8062c3a57f1e2 *man/rawMatricesWithCommonGenes.Rd
cda6ab0241314e7a9f4311d8234bada5 *man/reexports.Rd
9911e9938a58c8a526b59e91a823293b *man/saveConosForScanPy.Rd
3491cdc2c6624fe3ba055f2b681d6c1a *man/saveDEasCSV.Rd
587f069db5e4f6d4d6d53b993c422f42 *man/saveDEasJSON.Rd
1666ddcb2083133c2536d22846630a7e *man/scanKModularity.Rd
d79637d59b2ba7627063b57dd0d9861f *man/sgdBatches.Rd
3e8d3c562080a091f22f543380146549 *man/small_panel.preprocessed.Rd
ec8a8ed06cdc90d0c4a870c5beec2321 *man/stableTreeClusters.Rd
fee3be7c13b065c9b1a8ae5f99cd02b4 *src/Makevars
65b92938e3f3a8171632bfb8371c6e63 *src/Makevars.win
c9feabe8f86829d48fee469a263d09ca *src/RcppExports.cpp
34b117354cb9e7901efb14c344308c83 *src/Rjnmf.cpp
42be6faf3ca456cd336ccea3e8b9716e *src/adjustedRand.c
d9bd7a0b59d996f85bed193eddcb9cc9 *src/checkfunctions.cpp
ed6d519b3bc98137d315b2df7e70fd96 *src/cpca.cpp
90fb79d663ee335539b52706960b9a24 *src/deltacut.cpp
c326e893c0452e01103e52eea51ea02d *src/edgeFilter.cpp
52f1124b91a542c2367e06c055771034 *src/edge_rebalancing.cpp
04c89d716d82cda6ef1ec536751a79d3 *src/edgeweights.cpp
8b672ef2140fd2c1500900837bafad68 *src/gradients.cpp
1e2d4a8c25c9e99db0796114fa61da9b *src/graph_embedding.cpp
b617cb31d3672109767511603b3d229a *src/include/alias.h
01fdd96716a5242eb334ac11b8561763 *src/include/gradients.h
f0de146413db568b8577035e70400927 *src/include/largeVis.h
85809fb910c245a1872756d0ff5f5993 *src/largeVis.cpp
6d4cd1090a444b55125e3ad2a6d0e8a4 *src/propagate_labels.cpp
09436bd476b390e3105610411d4ee2d2 *src/spcov.cpp
d4e0eee6b623bd129bc212a8f68cb8c3 *tests/testthat.R
9abf972039a7d221b2a7143b41de30d4 *tests/testthat/test_functions.R
