1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
|
4b70769bfd8edc1a783f323350f07d02 *DESCRIPTION
9784bbd31ff5e76e9a8013fb1718d14d *NAMESPACE
57679970d38c17ac9c95478b9313aed0 *R/attractorsToLaTeX.R
0e037f01fa88a832cb43d3a9d5e9f5dd *R/binarizeTimeSeries.R
7b9f3b1500dd64c40cd4e9e2baa369ad *R/chooseNetwork.R
7c81eb3530ee3fede7742d9729de77c1 *R/edgeDetector.R
c7fb28f26b946db5f54730be6d492516 *R/fixGenes.R
b96b8b67effb0c2d55a29cc6f19323bd *R/generateRandomNKNetwork.R
9597332899ac07b3145917fafc789d15 *R/generateRandomStartStates.R
2c872695c4fa33c90c6de2431f19e689 *R/generateState.R
5650d6d8b6da147a254e9681a291a90b *R/generateTimeSeries.R
4db8f585d2e3477db95a8db2720a2e4c *R/getAttractorSequence.R
140740c1ba1d08eea3e27e9da3637f48 *R/getAttractors.R
08764b48eccb7812f9c333c122d1e689 *R/getBasinOfAttraction.R
cc663c2b39dc50cd45bbb83d7cd36d44 *R/getPathToAttractor.R
9637fc5badfec905a1d865d5e65d3839 *R/getStateSummary.R
a45f67785e1846f8482c9ff10debd95c *R/getTransitionProbabilities.R
d31c9950c1a42c23eb5585c23e98bb25 *R/getTransitionTable.R
553c3f023784f01d73c69c469d14ea53 *R/helpers.R
8e0fdeac893b8bfc8837c9d94e9ed1f9 *R/loadBioTapestry.R
f1e4da50ef5dd5ea083b8fcd060b3f77 *R/loadNetwork.R
aa19fa3aaa70362a5d5d18bb114c245c *R/loadSBML.R
817f7c8476aa6b32443be62885e3c72d *R/markovSimulation.R
d3dc1ab8d227e4775adfaee9973732e9 *R/parseBooleanFunction.R
75a4ff7284740122216a79cd7f9508e1 *R/perturbNetwork.R
6e8d3d79095844cf1fb6cb7c75750cfe *R/perturbTrajectories.R
b3c6b0765a241bb1d4e4a150f47d3d8b *R/plotAttractors.R
20fd67145509cae5e9701fcfa93e210c *R/plotNetworkWiring.R
9f64811ec997a7aa2fc262725ae6f7e5 *R/plotPBNTransitions.R
6404119c6511b8c5741721d6cd237276 *R/plotSequence.R
3e92ac93c5ce1934d542b3eb7985aa44 *R/plotStateGraph.R
1d3e5b86636a5b54035d7062285e34e4 *R/print.AttractorInfo.R
bd5b5182c9a4321e0051be7f40bcbf6f *R/print.BooleanNetwork.R
09ac08c8cb2ef098c96a86de93e5ad7c *R/print.BooleanStateInfo.R
b4ce1c3d7c29f9b9d92a5428ace77b0a *R/print.MarkovSimulation.R
55d7e998f889cf528bef3d68edb38562 *R/print.ProbabilisticBooleanNetwork.R
2a6921108f7704c4949bcd96b82a2cb0 *R/print.SymbolicBooleanNetwork.R
1138169d9ef31f04670bbc2544524e4c *R/print.SymbolicSimulation.R
0adfd6c034e0bf75c16d351c4f2e52f6 *R/print.TransitionTable.R
78216cfe9045ded3a90b43edb6e0d21f *R/reconstructNetwork.R
00623749adde58c327566c72a67d4027 *R/saveNetwork.R
8db261cf9b75f737bc6ca7f49c67dbd0 *R/scanStatistic.R
a9cfa06573f8eeb0aefa2329c59689aa *R/sequenceToLaTeX.R
5877e9963cac94f7dc2b245079826450 *R/simplifyNetwork.R
c8a4ab49f15e1e8888d4bd132e1d9271 *R/simulateSymbolicModel.R
595c68d880e16c31046313f648cc34c6 *R/stateTransition.R
ea0fbe49b283f4f0c073de77ab78fbaf *R/symbolicToTruthTable.R
42daa52bc14fc6918004e35203e07907 *R/testNetworkProperties.R
568159a3609b108c45ba2c39728fa6ce *R/toPajek.R
47bc51ada1eefa53c11e0171a589bc8b *R/toSBML.R
dab752c2c82ef4e5e93224ad6934208c *R/truthTableToSymbolic.R
811f12cc71a25cbf23ade7eb93bb2162 *R/zeta.R
26698e02ed7503124720c32ef70da6a0 *build/vignette.rds
6323b9a68ede50d320ceffa342711988 *data/cellcycle.rda
2162a3dfd9f29f06223413307dd177c8 *data/examplePBN.rda
d58578f1cc7da58378f1617a6d8bb021 *data/igf.rda
8919de127f7ee2391900468a36c5dcd4 *data/yeastTimeSeries.rda
c2ba2ffc7f8eecb769b2d151a0a567c3 *inst/CITATION
49fe6c2b2f5db31583cdedb90833d8ce *inst/NEWS.Rd
fb4bff4a00b9ef7f7933814535609bbe *inst/doc/BoolNet_package_vignette.R
d67c2471fb9f1075461b6d2fc79aa2b1 *inst/doc/BoolNet_package_vignette.Snw
195bc9de963d2ec89d00ba1d8aa9ad1c *inst/doc/BoolNet_package_vignette.pdf
fcb0ddc4a26eb5062f05b55032e5b151 *inst/doc/cellcycle.txt
27bccf40991bbe762bc274cbd7874f40 *inst/doc/example.btp
c18e73532d5371152f71d625415e81b2 *man/attractorsToLaTeX.Rd
3f38a60cff23b336642ed070e649f36a *man/binarizeTimeSeries.Rd
66463757d6cb6fab74e9a955a6164267 *man/cellcycle.Rd
418fea2c14f3bf578fc2d51de83baff8 *man/chooseNetwork.Rd
3b280a61e2e25a9432dfd0dab1d6d18e *man/examplePBN.Rd
ee848afa1c4ca77773b75def1fbb5597 *man/fixGenes.Rd
a7075800d913cf6125cd658cee8fba4b *man/generateRandomNKNetwork.Rd
6233be4a99e3679c3387eacc6021c9b7 *man/generateState.Rd
0ef226f76aa0a8be748c788682b9b09d *man/generateTimeSeries.Rd
55cc8cc9f64855597ea40877064cfd57 *man/generationFunctions.Rd
b92864ab58b032d49bbaf7e4b403040c *man/getAttractorSequence.Rd
ce20637e139cf63628d21531d479c5d7 *man/getAttractors.Rd
66c799a2190e76139de901c98178c102 *man/getBasinOfAttraction.Rd
f5b9134d6cb133543a1d3649b8d5915c *man/getPathToAttractor.Rd
227db2f59e2c70e412acc8d3bc76a66d *man/getStateSummary.Rd
394097ff1ec32744befa8ca978f25de0 *man/getTransitionProbabilities.Rd
bba61ea4a4e91e29298e56a5d8907d10 *man/getTransitionTable.Rd
55e1e5c8c85820e3d07687552d44944a *man/igf.Rd
587e3d9f92b152e985488e938940ac71 *man/loadBioTapestry.Rd
4977fd501e88e2cee72643a701912b63 *man/loadNetwork.Rd
652f08ea8e4fb8f8c633f7fa9d900f3c *man/loadSBML.Rd
355384e357d123772fa178b50957e972 *man/markovSimulation.Rd
c5aa37e4f7fccd0dcc45ae63ca2e43c1 *man/perturbNetwork.Rd
76979ad66ad56be54d1b7be3b8a4aeb8 *man/perturbTrajectories.Rd
b87db947fd701f08a278ed96f2368ee5 *man/plotAttractors.Rd
47b0d009ef25d726d4595aaae5c7e125 *man/plotNetworkWiring.Rd
f16447c951cf61d08cd476c8b83f82f0 *man/plotPBNTransitions.Rd
8d67815eda6244e4f9baaabda715b012 *man/plotSequence.Rd
be7e29a2f7ee50329f93c4d9e2b9d0c9 *man/plotStateGraph.Rd
3ec938a75a9dcb49203ce32e740ecd2a *man/print.AttractorInfo.Rd
2735292192997eca8e0a624a0f136d2f *man/print.BooleanNetwork.Rd
5d61892283589cdb01ef269a488e3d66 *man/print.MarkovSimulation.Rd
60153469a83673fe623dc62918ac84fa *man/print.ProbabilisticBooleanNetwork.Rd
7de039167ec5b192bd12d28bc49d4c72 *man/print.SymbolicSimulation.Rd
e0d5cb6760755507a21c167f9426c592 *man/print.TransitionTable.Rd
e5b5ee63c75be0c158d32677bf07b36b *man/reconstructNetwork.Rd
cb473a0b145eaeac4d8f5c07a68b3ad5 *man/saveNetwork.Rd
a8503e56eb5ff34e2b334e88742ba057 *man/sequenceToLaTeX.Rd
bb7a087492001b4fabe64d2d8506caa1 *man/simplifyNetwork.Rd
b50dfe205d07c1435afefe8ec1d53115 *man/simulateSymbolicModel.Rd
6e816d8d86f0b4b06bbdf0ddc9b5f0bc *man/stateTransition.Rd
c5b8ac0b669c25b9f6b7946b233d7f67 *man/symbolicToTruthTable.Rd
dff636a8e481d63b3b52604efa9f0ebb *man/testNetworkProperties.Rd
8e8514658481c4feb3ff6aacf0aff459 *man/toPajek.Rd
b304afa7f76464603efbf169a2b46336 *man/toSBML.Rd
6a6f4f827e1512236927e239ad2e0719 *man/truthTableToSymbolic.Rd
c2fac985948f6c23a281a70597f2220e *man/yeastTimeSeries.Rd
da975f995fc5f2ef57170b3d3ba53178 *src/Makevars.win
56a684219ad834529e4c4c6e9deb9ef2 *src/attractor_info.c
8b25f0694d6279bba2e28c947e304524 *src/attractor_info.h
4f5885dbe22b3adae3da6a066bb3cb06 *src/attractor_search_interface.c
8e4fdfd767d86b61f15c5c245e8dba77 *src/boolean_network.h
2ca57d54ac06972d96cd77f2be31d821 *src/common.c
8b9a314ecf353576c5d9199a8fc9d97d *src/common.h
b4b6b972bdfa49be58d163a0ff9e9558 *src/init.c
9ab5e72eecfbf58d09815285c86b1f32 *src/picosat.c
2c29607ee624151f84ac09f55535010e *src/picosat.h
a869a6a74b9c0a1c4c796003c1251d60 *src/probabilistic_boolean_network.c
e99e9148907849c0b79f373a2714639c *src/random.h
a18cb9116413559c5438e6f25e8f7149 *src/reconstruct_network.c
b5e6e8d104bc2f031af765d728de03b7 *src/sat_search.c
0d6515ab8ff7605f16ca10eb5c6fc9e4 *src/sat_search.h
351d201ca2f926bdd1b5f4694de19902 *src/statespace_search.c
c085761b2f853545febe7170a3715eb2 *src/statespace_search.h
4d4e389c0ff626a5e0db88416991e94e *src/symbolic_network.c
dbbf4848847aefb8b756d749519bdf1d *src/symbolic_network.h
44a2f71d374da28a5c80e674f62bc976 *src/symbolic_simulator.c
460b4e88a7af5ba2c60231ca9f3644c8 *src/uthash.h
d67c2471fb9f1075461b6d2fc79aa2b1 *vignettes/BoolNet_package_vignette.Snw
327d97a2c7e1bebc61bd3e20a2082b5e *vignettes/BoolNet_package_vignette.Snw.tex
45d3f76bd49d22f8d6e0ad5cc2a14c62 *vignettes/BoolNet_package_vignette.bib
8a78420b2b9d23b39e6ae9fb79d41ebf *vignettes/attractor1.pdf
6bb506206da5fb61f62cb56c5e935120 *vignettes/attractor2.pdf
af93a2fda5c13d9e21b95ba71ce30a9e *vignettes/attractor3.pdf
80ef18e9875b6901dd4f1c5dd83842fc *vignettes/attractor_robustness.pdf
59d4130c0da6d1dea71b37d6431374b2 *vignettes/basinsize.pdf
cbc02d945670e5381418720262b10955 *vignettes/biotap_initval.png
530409792bed5d5a53140e85554b9d61 *vignettes/biotap_logic.png
d4a2fcf1d0a873afde1c021019649014 *vignettes/biotap_model.png
e02e5fea28346a3d8162b4feaa6ffb05 *vignettes/biotap_sim_properties.png
1d058f049a3c1d94592bec3e06b77480 *vignettes/indegree.pdf
52b1e5f5a9b41d5670fe7a23560495c4 *vignettes/indegree_kl.pdf
d6aa77a2d43960ebb98c288990d3fe41 *vignettes/pajek.png
1f6831762c8913a7e10160a83e6c7959 *vignettes/pbntransitions.pdf
dd4f4251f46fbe03a206a3b7ea99f281 *vignettes/piecewisestategraph.pdf
7f3d60160632e2f09add26bb1bb035ef *vignettes/sequence.pdf
01ecf83ac8b196de6d75a20716f405d9 *vignettes/sequence_igf.pdf
4ce1d630304d3f6cbc96f7844e0a5f15 *vignettes/stategraph1.pdf
6674bb5b871dc80697a69ccfd24623e4 *vignettes/stategraph2.pdf
a80586e3af1e3220e721e12569e0bdb9 *vignettes/transition_robustness.pdf
0c82f879bd44520423c98c743f5465c9 *vignettes/wiring1.pdf
ae9fd9d09c1072c33c57d5e9071ae27f *vignettes/wiring2.pdf
5f6087613151132a3ccb468023836627 *vignettes/wiring_biotap.pdf
|
