74e829b5f75e98ad5e9544e8978b15d2 *DESCRIPTION
90c3f50f084d321b5b5362cb43399d4c *NAMESPACE
b02d69ebe418c9ce62a38e8f7536c395 *NEWS
b20e71f0c5f3f3a4e6fc1cfe6a2c91fa *R/Bioc-layer.R
faa4fa1fa2ebdd0a0f0926657f4b669a *R/NMF-class.R
cb92fbe2ad8ed07d3b6988790361cf89 *R/NMFOffset-class.R
56c06d6a59b72229d6fed8139b5917e1 *R/NMFSeed-class.R
7b68b9a926bb07021315925e93924722 *R/NMFSet-class.R
0b026fe9389466c7a387be01aac7372d *R/NMFStrategy-class.R
b2710b639ac2f35ae198dbd8d355ad85 *R/NMFStrategyFunction-class.R
0cd21650efeda64af838976dc308efaa *R/NMFStrategyIterative-class.R
9bfd9b9a7f095d2d23aad3192c7dad93 *R/NMFfit-class.R
d4a9ccb2a64df0fcc003732b22087b29 *R/NMFns-class.R
c3f522fb904182cb541f1c7aaffbf399 *R/NMFplots.R
06ce7f9fb62284b85f8faea26cd9bc08 *R/NMFstd-class.R
614a1964d186c571fb4738d5a3209be1 *R/aheatmap.R
2215efb3fafbbae155830aed6b0b3ae1 *R/algorithmic.R
02e9317705694ecfb4a36c604eadd693 *R/algorithms-base.R
015a5cef7738322d66ae1f280225f9e6 *R/algorithms-lnmf.R
6600c764faf7481013e0d6481fc25151 *R/algorithms-lsnmf.R
ff9c9ac7006e8ef914ddb1d883316cbb *R/algorithms-pe-nmf.R
c7345e2125689ff69487338672fead40 *R/algorithms-siNMF.R
c56788dd91ab749e374a031566915509 *R/algorithms-snmf.R
eca172be180d1e51dec38a7aaab54bee *R/atracks.R
ac245d1088fea32f779b5c70000b012c *R/colorcode.R
c67596fde96f61368c05332110d7a0b6 *R/data.R
d5c1883b5350a8285e19c2772ceb50d8 *R/extractFeatures.R
8c3302dcde34a1119b0d895938be87dc *R/fixed-terms.R
1f90bca8a7b53737476d0956b55502ab *R/grid.R
5cf50ed45523796cab2a7a9533fd6981 *R/heatmaps.R
42922f37ef295baaa4b7fa79c08c8197 *R/nmf-package.R
d560474d39fcc4c122e03c0b77e3d229 *R/nmf.R
cf458865933fdc20ae922ec6a7951cf3 *R/nmfModel.R
7a5a19a7fab0db48d3f8572df863e898 *R/options.R
8ab03f9be773569a0f6e1b62474b4ded *R/parallel.R
acc6d9b03f2840344a8bca2499023d7b *R/registry-algorithms.R
d75a19751507a5792dfd2bab38692474 *R/registry-seed.R
2544245de442422a9c843180d40600a6 *R/registry.R
c28c1144175993becd60f5a16156a3e2 *R/rmatrix.R
b1d44e778d211021bc1754e90551c7c5 *R/rnmf.R
373909c677f0e1db2301f30638145a13 *R/run.R
dd767a7d1fde7adfe30b3fee7cf86f5b *R/seed-base.R
1fcf1d8cb6162329731c7dd6d02c8a97 *R/seed-ica.R
bcfb74089e84793cd6f41bd374bfd6fa *R/seed-nndsvd.R
71bf9f5ea7e161d5b3604040e37785ad *R/setNMFClass.R
5017945c10bf9b95560568b58c90559a *R/simulation.R
610b78f4f8f21a5a85d97967e4577bc8 *R/tests.R
fce304c13565e5b26f0abf34bde1e761 *R/transforms.R
0d7e423aeafeb4265c4bec5540fe6927 *R/utils.R
77bc2b9255b6a8b6044e67e08ec91284 *R/versions.R
920c4ad193eb48edcadb3a67fc99e8db *R/vignetteFunctions.R
74a0940601ce18a8c64b4b2da1f32aab *README.md
551e2ca0a05eff9062c105483449fac4 *TODO
2da389027a68f0f2f42aff6e3eb1cf78 *build/vignette.rds
f8015e2bc710fb0bf869d2fdddf90e73 *data/esGolub.rda
7ee636d67aaf85d2b38c87f512559c1d *demo/00Index
5d230c7b9bd8450e8f3621f0fa2e8fe9 *demo/aheatmap.R
1772a84edd497138e1c2026608d99348 *demo/heatmaps.R
51502b8ceeab50a22383047790cc5ab6 *demo/nmf.R
ff1382a08454f5b447bcf9bbc73c7f24 *inst/CITATION
c4d05e519580e330b6c7693b18650773 *inst/REFERENCES.bib
b4f576ad4747ac8e5c2040f7f801092b *inst/doc/NMF-vignette.R
a45d2ff3ab24f7d538b720907d09500a *inst/doc/NMF-vignette.Rnw
8e4b2650aff10ff854745ae1b82037b2 *inst/doc/NMF-vignette.pdf
acdf732ac506a2c728497f591082c2d3 *inst/doc/consensus.pdf
b3c02ed25d8acde6c0972f68804fc386 *inst/doc/heatmaps.R
adfe35c9248a2d1b0ab0c2da6dcdeadb *inst/doc/heatmaps.Rnw
4c7804ab53bb41dba75420bceff2f65c *inst/doc/heatmaps.pdf
21a62ee5e50af50c0b22f88d167d068c *inst/scripts/grid.R
2952972c46324b0beb29d6892b7e2e40 *inst/scripts/report.Rmd
8516263e4f349e976433bf4f4a418b1b *man/Frobenius-nmf.Rd
2c2e5f62d20bcf72fb88009d7b9cc77a *man/KL-nmf.Rd
e994bb5f22076c0034607b157e8d6b2e *man/NMF-class.Rd
3afb15f1474a46e4086d736a3c871caf *man/NMF-defunct.Rd
dc30d7f32eb6954c2e9aa946f8b9df26 *man/NMF-deprecated.Rd
c067d1fa1270349d839716420eedd3c5 *man/NMF-package.Rd
06d347a23a138dccfd978daa81ea0e1b *man/NMFList-class.Rd
201bfce1ddf5c18da7ac1bfe67ffb94f *man/NMFOffset-class.Rd
425940f01b128ed86c081405ae146ab0 *man/NMFSeed-class.Rd
895c97e9785c890a0181e953407ad117 *man/NMFStrategy-class.Rd
78a5599bceeaad4bfce2d04ce03c8a21 *man/NMFStrategy.Rd
5c94b9595c875433cb19171da1a62758 *man/NMFStrategyFunction-class.Rd
a8510138b04563c2338ca55b1f6170c3 *man/NMFStrategyIterative-class.Rd
3092af863a3f6a9b76f3f2f6fe769335 *man/NMFfit-class.Rd
b45d28a519f4470a137736e70c7afc53 *man/NMFfitX-class.Rd
d9a31d45444d62f906d662fc8b265426 *man/NMFfitX.Rd
28ea171d3e0fa853cabb91d2239555fc *man/NMFfitX1-class.Rd
2ba49b04dcaf97140fd89a8bd99b7737 *man/NMFfitXn-class.Rd
f874ba9928c02022df7d9c8a2ac5bd4d *man/NMFns-class.Rd
5cbcc1d2fe52babe89342f25e0443f52 *man/NMFstd-class.Rd
78f09d6304dbbaaa447e57eee894daba *man/RNG.Rd
8b66c7ab49c34b0e5df0c652d45d437f *man/SNMF-nmf.Rd
42afa8e2c6f5d7ac5c045174a05bf8d5 *man/Strategy-class.Rd
28877eb83332222d0a67473a16148fbc *man/advanced.Rd
4fb111a0b55a5731ff84338e85c6cd33 *man/aheatmap.Rd
762c9a6fd51a723065df7becaa801083 *man/algorithm-commaNMFList-method.Rd
154a6705361e6ca6c244d4c921620a01 *man/algorithmic.Rd
9c3697730dd0a7aea87f13af6f726812 *man/assess.Rd
20413d9a4e878340f471a26415386685 *man/atrack.Rd
a4855c2e0d6ece887e5e6b7fb27d640c *man/basis-coef-methods.Rd
435ac6f77719a0d9a5a18994c40989c1 *man/basiscor.Rd
1810d6750bc88981b602808d9f673c4a *man/bioc.Rd
182672f1ed5b39098c5127c0d1b96a8f *man/c-commaNMF-method.Rd
84c5ff2ee4546200a404c1968c7e4bd6 *man/canFit.Rd
4a680134ba34c9d60f7cf8448de0175c *man/ccBreaks.Rd
04aa500814501e01f971a9a9e649f7d6 *man/ccPalette.Rd
30b38d0eb549f60d498fea802752f9e8 *man/ccRamp.Rd
ead0bcb1b2960042e6c225abaf312d3f *man/ccSpec.Rd
3c3630400842a8205c1698dd2ece18b9 *man/checkErrors.Rd
94b8ec67220a6c9cb58bf5a9d07c21ce *man/cluster_mat.Rd
491d24b685f65bb7aaafb80c3bcf908e *man/connectivity.Rd
079f0bf31cd00add0215f852c2671793 *man/consensus-commaNMFfitX1-method.Rd
4191760c707e50acc9085b946e6972e4 *man/consensus-commaNMFfitXn-method.Rd
1adf8241b895a1da992f6fd39b394d60 *man/consensushc.Rd
00357312e2fb0196a0c380f4134d2f32 *man/cophcor.Rd
656b6a8bfe95f66aa37d808b14427b72 *man/cutdendro.Rd
18de62f7c36df3b79d39e649b5f126c4 *man/deviance.Rd
4d758173653d9a9e4fc6826f10288896 *man/dimnames.Rd
d17124d62761eea2293f997a41b3b978 *man/dims.Rd
0eda8c23e3906c11c2894eee60b12e26 *man/dispersion.Rd
edcc1d52a2ad50aad945d5d74e65121a *man/dot-fcnnls.Rd
7a7345f79c62ca5e4d29063e7f37dfde *man/esGolub.Rd
7e7f3275630b6b7cb0783d7abfff2f3e *man/fcnnls.Rd
26389df3557196423682198ca30e4490 *man/fit.Rd
c1baa89aba303ba8bd4ef407e184e55c *man/fitted.Rd
06890b1489d4114507541c63b32ec5ed *man/foreach.Rd
4bdd231e0439efdac037a437ebd0fdd9 *man/gfile.Rd
fedca5f307d98d0e1f276cf0595e6673 *man/grid.Rd
268ec51b8cf89183b78a2df2c0b6d767 *man/heatmaps.Rd
c103f3feaa7e2c4ddb4b5cb2de75356d *man/inplace.Rd
d99fb97c10c6181d657415a5e129662f *man/isCRANcheck.Rd
0c0ec93fd25a65ff9df90d5eb3507027 *man/latex.Rd
42c4702adb4bd8432e51b7f0d2aab9be *man/lsNMF-nmf.Rd
ad4bea9f6bf8da8c5b8af058d4e70581 *man/lverbose.Rd
83ccd902c78857036785b022791144a5 *man/match_atrack.Rd
17146cceec053543e3ad16d0570d092d *man/nmf-compare.Rd
57ec9471c6c28fc390348b3bb17e81f8 *man/nmf.Rd
b5a35acf90da3f5d014c3686d234368d *man/nmf.equal.Rd
625896d5746034a531a4d1da377fcb5f *man/nmfAlgorithm.Rd
f9cb9d24d68ee319e7593c1d2fee3223 *man/nmfApply.Rd
0ad0ee7ca0345c8bb2ab226df30a1860 *man/nmfCheck.Rd
4952f5420fac8de51c8810e64b845974 *man/nmfEstimateRank.Rd
d95047f4bf61f4c7ccaa1e921ba4b522 *man/nmfFormals.Rd
35544ed71b508eead30c64deb154c324 *man/nmfModel.Rd
d4898d6e3b1cd1b6b178a60c2d576ee5 *man/nmfObject.Rd
49f4c64242cc5d0c47b94a9c42807ca2 *man/nmfReport.Rd
fce06c76bfd398abc1a348d67e7e8c58 *man/nmfSeed.Rd
7780fe2dae233c6ba52e340d797e2a11 *man/nmfWrapper.Rd
6d8709095f7fd4aab928d604ce1e83a0 *man/nmf_update_KL.Rd
dd9f2187150114a41180f0e5389341f3 *man/nmf_update_euclidean.Rd
c28f918be30a5da8db623facf38eea9f *man/nneg.Rd
f481c5f6107309c849530b83206f18f2 *man/nsNMF-nmf.Rd
ca58350f90998275f533e264d5ce5942 *man/objective-commaNMFfit-method.Rd
4082dd89c61fd2ae75e274171565642b *man/offset-commaNMFOffset-method.Rd
c5c14f3e24e71b81dc726a027234fd77 *man/offset-commaNMFfit-method.Rd
1c7d3394a1b42e3f068ca65c777a4021 *man/offset-nmf.Rd
2cabc5f5cca514186f4a5f2690e34fae *man/options.Rd
6ceade6a531a0e234b6871dd0effb817 *man/parallel.Rd
1b26866d20f593b9a4d791975d0768f2 *man/parse_formula.Rd
2959063b2e6978de03a0bf0d3b314046 *man/plot-commaNMFfit-commamissing-method.Rd
6e450dcc8156f699b0e5d63c598a89d8 *man/predict.Rd
c914f0497aac5afb70cd82ab749cf4fd *man/profplot.Rd
d8d2498c4b415b41cde4cf9e8049f8a5 *man/purity.Rd
35694f86b6139a3ee2cd3f82a41ad824 *man/randomize.Rd
eda7031ec18b67eecbabf5cfa04c054d *man/registry-algorithm.Rd
cb7ba12690237f166574749bb707d3f7 *man/residuals.Rd
c8aa1d388b52049207fc058e157af5b6 *man/revPalette.Rd
622964f68f0911dff7cf9eede6fac98e *man/rmatrix.Rd
5200979607c31ee9e75d2e4f2e89a37c *man/rnmf.Rd
08b1b09c30f90240167a25a5dc1671ef *man/rss.Rd
e589f075ac5a2404fe136375475ab67c *man/runtime-commaNMFList-method.Rd
67dd23b7d9dd5739289857be80513bbc *man/runtime.all-commaNMFfitXn-method.Rd
b20c67b061270a8948c14f30c029d266 *man/scale.NMF.Rd
0e9aa7fe953cbc4d0b2cdfdd6a61fabb *man/scores.Rd
b1deacdafd60ed14a2ee40ec5dbffba3 *man/seed.Rd
0a372ae7c4ebd520f9a087253bf5f5cc *man/setNMFMethod.Rd
d316289400db8ed5f1504aca95681759 *man/setNMFSeed.Rd
571ad68968801bbafe7f2d2e25a22550 *man/setup.Rd
7bb22e6720734f511e803a871fb26e39 *man/show-commaNMF-method.Rd
2d06782ea4c4ad91ac5694f33575e923 *man/show-commaNMFList-method.Rd
13c4118576e5e6767234d6b61f4d9159 *man/show-commaNMFOffset-method.Rd
bb3a39862b068259cab8ea954454bcc2 *man/show-commaNMFSeed-method.Rd
84b6af7f192d8e0919bf6a7795645353 *man/show-commaNMFStrategyIterative-method.Rd
515b08c8a685e823723afeb4a1a313c8 *man/show-commaNMFfit-method.Rd
f36b652373f4f16f2bb6828c2b5d585f *man/show-commaNMFfitX-method.Rd
c1c89600aba522e34a6ba28190f2bd7c *man/show-commaNMFfitX1-method.Rd
f14bfc191bb4d6d39684d9ee54a39736 *man/show-commaNMFfitXn-method.Rd
becd00d7a3051215763271cd1eb8325e *man/show-commaNMFns-method.Rd
398be317ddaf1e59d8d8bd2bb17ccabb *man/silhouette.NMF.Rd
9e8cf1622e25fed14b84bfcd0521ed35 *man/smoothing.Rd
e6a7d35fb160e28931b03173e82cde35 *man/sparseness.Rd
127c40883b9775f0c9a8500378c0efed *man/staticVar.Rd
b60bd8e815ca75ea07f7bcec5e2b4d3e *man/stop-NMF.Rd
ae4a92d9c449e96cf2f7578d778b4beb *man/subset-NMF.Rd
b9fe38868ac0a2210bc1926c3fabd77e *man/syntheticNMF.Rd
4264ddc5ceb09fc3e2edf67a4ffea81e *man/t.NMF.Rd
d0a67df32409d5fe6c871f24b2b71c7c *man/terms-internal.Rd
b279c6ba4bf77ce4028e6e99ee3b6fb3 *man/terms.Rd
8af3bdb9baf9ace2bff7cf278528808e *man/txtProgressBar.Rd
608427df6c5d9db2129add0bef10d767 *man/types.Rd
c1dd149f5e75b70b800565157584fe7a *man/utils.Rd
7cc4426f76a914383e70b17f2f35c312 *src/distance.cpp
74facf85e6495aea68dd04b725cc6787 *src/divergence.cpp
e78941582fb2d47fd1f87f9a48a37729 *src/euclidean.cpp
7c22b1b500cab25872924e218f1645f5 *src/registerDynamicSymbol.c
bfd45e816683586ee5ba4b6a132a6fe0 *src/utils.cpp
a45d2ff3ab24f7d538b720907d09500a *vignettes/NMF-vignette.Rnw
e80ff821d37969bdb7ff73081b8f7c53 *vignettes/consensus.pdf
adfe35c9248a2d1b0ab0c2da6dcdeadb *vignettes/heatmaps.Rnw
d0b6a6b6a5d501ed47120a405f13c012 *vignettes/src/bmc.R
